Hnrnpk (heterogeneous nuclear ribonucleoprotein K) - Rat Genome Database

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Gene: Hnrnpk (heterogeneous nuclear ribonucleoprotein K) Rattus norvegicus
Analyze
Symbol: Hnrnpk
Name: heterogeneous nuclear ribonucleoprotein K
RGD ID: 71058
Description: Enables several functions, including ATPase binding activity; lamin binding activity; and nucleic acid binding activity. Involved in several processes, including animal organ development; cellular response to organonitrogen compound; and regulation of synapse organization. Located in several cellular components, including axon terminus; dendritic spine; and postsynaptic density. Part of protein-DNA complex. Is active in glutamatergic synapse and postsynapse. Orthologous to human HNRNPK (heterogeneous nuclear ribonucleoprotein K); PARTICIPATES IN spliceosome pathway; INTERACTS WITH 2,4-dibromophenyl 2,4,5-tribromophenyl ether; 2,6-dinitrotoluene; 3H-1,2-dithiole-3-thione.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Csbp; dC stretch-binding protein; hnRNP K; Hnrpk
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2176,262,936 - 6,275,001 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl176,262,998 - 6,274,997 (+)Ensembl
Rnor_6.0176,664,730 - 6,676,753 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl176,665,659 - 6,676,654 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0178,868,934 - 8,881,126 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41712,196,630 - 12,205,720 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11712,196,629 - 12,205,720 (+)NCBI
Celera176,375,531 - 6,384,621 (+)NCBICelera
Cytogenetic Map17p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (EXP)
2,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3-phenylprop-2-enal  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
7,12-dimethyltetraphene  (ISO)
aldehydo-D-glucose  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP)
Brodifacoum  (EXP)
bufalin  (ISO)
cadmium dichloride  (EXP)
caffeine  (EXP,ISO)
carbon nanotube  (ISO)
chloromethylisothiazolinone  (ISO)
clofibric acid  (EXP)
clothianidin  (ISO)
cobalt dichloride  (ISO)
colforsin daropate hydrochloride  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
CU-O LINKAGE  (ISO)
cycloheximide  (EXP)
cyclophosphamide  (EXP,ISO)
D-glucose  (EXP)
diarsenic trioxide  (ISO)
dihydroartemisinin  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
fenvalerate  (EXP)
folic acid  (ISO)
fructose  (EXP)
gentamycin  (EXP)
glucose  (EXP)
glycine  (EXP)
hexadecanoic acid  (ISO)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP)
isobutanol  (ISO)
ivermectin  (ISO)
lovastatin  (ISO)
maneb  (ISO)
metformin  (ISO)
methapyrilene  (EXP)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-nitrosomorpholine  (EXP)
nickel atom  (ISO)
ochratoxin A  (ISO)
paclitaxel  (ISO)
paraquat  (EXP,ISO)
perfluorooctanoic acid  (ISO)
phenethyl isothiocyanate  (ISO)
propiconazole  (ISO)
quartz  (ISO)
resveratrol  (ISO)
rottlerin  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sulforaphane  (ISO)
T-2 toxin  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
warfarin  (ISO)
withaferin A  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
acute-phase response  (IEP)
aging  (IEP)
camera-type eye development  (IEP)
cellular response to amino acid stimulus  (IEP)
cellular response to forskolin  (IDA)
cellular response to glucose stimulus  (IEP)
cellular response to insulin stimulus  (IDA,IEP)
cellular response to rapamycin  (IEP)
central nervous system development  (IEP)
cerebellum development  (IEP)
cerebral cortex development  (IDA,IEP)
hippocampus development  (IEP)
kidney development  (IEP)
liver development  (IEP)
lung development  (IEP)
modulation of chemical synaptic transmission  (IMP)
mRNA processing  (IEA)
negative regulation of apoptotic process  (IEA,IMP,ISO)
negative regulation of branching morphogenesis of a nerve  (IMP)
negative regulation of gene expression  (IMP)
negative regulation of mRNA splicing, via spliceosome  (IEA,ISO)
negative regulation of protein binding  (IMP)
negative regulation of transcription by RNA polymerase II  (IMP)
ovarian follicle development  (IMP)
peripheral nervous system development  (IEP)
positive regulation of dendrite extension  (IMP)
positive regulation of dendritic spine development  (IMP)
positive regulation of long-term synaptic potentiation  (IMP)
positive regulation of low-density lipoprotein receptor activity  (IEA,ISO)
positive regulation of neuron projection development  (IMP)
positive regulation of protein localization to cell surface  (IMP)
positive regulation of receptor-mediated endocytosis  (IEA,ISO)
positive regulation of RNA splicing  (IMP)
positive regulation of synapse maturation  (IMP)
positive regulation of synaptic transmission  (IMP)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
regulation of gene expression  (IBA)
regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator  (IEA,ISO)
regulation of low-density lipoprotein particle clearance  (IEA,ISO)
regulation of mRNA splicing, via spliceosome  (IBA)
regulation of postsynapse organization  (IDA,IMP)
regulation of transcription by RNA polymerase II  (IBA,IMP)
response to activity  (IEP)
response to salt  (IEP)
RNA processing  (IEA)
RNA splicing  (IEA)
thymus development  (IEP)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Barboro P, etal., Br J Cancer. 2009 May 19;100(10):1608-16. doi: 10.1038/sj.bjc.6605057. Epub 2009 Apr 28.
2. Blanchette AR, etal., Gene Expr Patterns. 2006 Aug;6(6):596-606. Epub 2006 Feb 20.
3. Brendel C, etal., Biochem J. 2004 Dec 1;384(Pt 2):239-46.
4. Cao W, etal., Nucleic Acids Res. 2012 Sep;40(16):8059-71. doi: 10.1093/nar/gks504. Epub 2012 Jun 8.
5. Chen WQ, etal., Biochim Biophys Acta. 2008 Mar;1784(3):555-62. doi: 10.1016/j.bbapap.2008.01.002. Epub 2008 Jan 12.
6. Chen YI, etal., Nucleic Acids Res. 2007;35(12):3928-44. Epub 2007 May 30.
7. Ciarlo M, etal., Int J Cancer. 2012 Aug 1;131(3):582-90. doi: 10.1002/ijc.26402. Epub 2011 Oct 20.
8. Di Liegro CM, etal., Neuroscience. 2013 Jan 15;229:71-6. doi: 10.1016/j.neuroscience.2012.10.072. Epub 2012 Nov 14.
9. Dzwonek A, etal., FEBS Lett. 2006 Mar 20;580(7):1839-45. Epub 2006 Feb 24.
10. Folci A, etal., J Neurosci. 2014 Jul 2;34(27):9088-95. doi: 10.1523/JNEUROSCI.0303-14.2014.
11. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
12. Hope NR and Murray GI, Hum Pathol. 2011 Mar;42(3):393-402. doi: 10.1016/j.humpath.2010.08.006. Epub 2010 Dec 30.
13. Ito K, etal., Nucleic Acids Res 1994 Jan 11;22(1):53-8.
14. Ji YF, etal., Biochem Biophys Res Commun. 2011 Feb 25;405(4):691-6. doi: 10.1016/j.bbrc.2011.01.105. Epub 2011 Feb 1.
15. Ji YF, etal., Glia. 2013 Dec;61(12):1959-75. doi: 10.1002/glia.22566. Epub 2013 Sep 24.
16. Kappeler L, etal., J Neuroendocrinol. 2003 Jun;15(6):592-601.
17. Klimek-Tomczak K, etal., Acta Biochim Pol. 2006;53(1):169-78. Epub 2006 Feb 23.
18. MGD Curation, June 12, 2002
19. MGD data from the GO Consortium
20. Miau LH, etal., J Biol Chem. 1998 Apr 24;273(17):10784-91.
21. Mikula M, etal., Proteomics. 2006 Apr;6(8):2395-406.
22. OMIM Disease Annotation Pipeline
23. Ostrowski J, etal., J Biol Chem. 2004 Dec 24;279(52):54599-609. Epub 2004 Oct 13.
24. Pipeline to import KEGG annotations from KEGG into RGD
25. Proepper C, etal., PLoS One. 2011;6(11):e27045. doi: 10.1371/journal.pone.0027045. Epub 2011 Nov 15.
26. RGD automated data pipeline
27. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
28. RGD automated import pipeline for gene-chemical interactions
29. Stains JP, etal., Biochem J. 2005 Jan 15;385(Pt 2):613-23.
30. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
31. Szeszel-Fedorowicz W, etal., J Biol Chem. 2006 Nov 10;281(45):34146-58. Epub 2006 Sep 15.
32. Thyagarajan A and Szaro BG, Brain Res. 2008 Jan 16;1189:33-42. Epub 2007 Nov 17.
33. Tian Z, etal., Hypertension. 2008 Apr;51(4):899-904. doi: 10.1161/HYPERTENSIONAHA.107.109173. Epub 2008 Mar 3.
34. Wahl MC, etal., Cell. 2009 Feb 20;136(4):701-18. doi: 10.1016/j.cell.2009.02.009.
35. Wang N, etal., Endocrinology. 2011 Mar;152(3):1024-35. doi: 10.1210/en.2010-0797. Epub 2010 Dec 29.
36. Wei CC, etal., J Biol Chem. 2006 Sep 1;281(35):25344-55. Epub 2006 Jul 12.
37. Weng Z, etal., Mol Cell Biol. 1994 Jul;14(7):4509-21.
38. Yang Y, etal., Neuron. 2009 Mar 26;61(6):880-94. doi: 10.1016/j.neuron.2009.02.010.
Additional References at PubMed
PMID:10749975   PMID:11747608   PMID:11991638   PMID:16189514   PMID:16396499   PMID:16448870   PMID:16854843   PMID:19420131   PMID:19946888   PMID:20131911   PMID:20371611   PMID:20458337  
PMID:20548952   PMID:20673990   PMID:21357748   PMID:21423176   PMID:22365833   PMID:22658674   PMID:22681889   PMID:22871113   PMID:23533145   PMID:23636947   PMID:23979707   PMID:24530304  
PMID:24625528   PMID:25416956   PMID:25468996   PMID:26316108   PMID:27430620   PMID:29255796   PMID:29476059   PMID:29892012   PMID:30450874   PMID:33576715  


Genomics

Comparative Map Data
Hnrnpk
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2176,262,936 - 6,275,001 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl176,262,998 - 6,274,997 (+)Ensembl
Rnor_6.0176,664,730 - 6,676,753 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl176,665,659 - 6,676,654 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0178,868,934 - 8,881,126 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41712,196,630 - 12,205,720 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11712,196,629 - 12,205,720 (+)NCBI
Celera176,375,531 - 6,384,621 (+)NCBICelera
Cytogenetic Map17p14NCBI
HNRNPK
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl983,968,083 - 83,980,616 (-)EnsemblGRCh38hg38GRCh38
GRCh38983,968,083 - 83,980,630 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37986,582,998 - 86,595,530 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36985,772,912 - 85,785,339 (-)NCBINCBI36hg18NCBI36
Build 34983,812,645 - 83,824,636NCBI
Celera957,154,011 - 57,166,581 (-)NCBI
Cytogenetic Map9q21.32NCBI
HuRef956,408,631 - 56,421,199 (-)NCBIHuRef
CHM1_1986,729,595 - 86,742,166 (-)NCBICHM1_1
Hnrnpk
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391358,538,946 - 58,551,157 (-)NCBIGRCm39mm39
GRCm39 Ensembl1358,538,956 - 58,551,157 (-)Ensembl
GRCm381358,391,132 - 58,403,343 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1358,391,142 - 58,403,343 (-)EnsemblGRCm38mm10GRCm38
MGSCv371358,493,312 - 58,503,877 (-)NCBIGRCm37mm9NCBIm37
MGSCv361358,401,574 - 58,412,139 (-)NCBImm8
Celera1359,454,314 - 59,464,879 (-)NCBICelera
Cytogenetic Map13B1NCBI
Hnrnpk
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554323,246,092 - 3,257,774 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554323,246,090 - 3,257,774 (+)NCBIChiLan1.0ChiLan1.0
HNRNPK
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1983,324,235 - 83,336,884 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl983,324,238 - 83,336,756 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0940,898,593 - 40,911,159 (+)NCBIMhudiblu_PPA_v0panPan3
HNRNPK
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1175,499,334 - 75,511,525 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl175,499,393 - 75,511,425 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha176,149,689 - 76,161,319 (+)NCBI
ROS_Cfam_1.0175,800,635 - 75,812,819 (+)NCBI
UMICH_Zoey_3.1175,615,073 - 75,626,694 (+)NCBI
UNSW_CanFamBas_1.0175,377,881 - 75,389,506 (+)NCBI
UU_Cfam_GSD_1.0176,080,753 - 76,092,378 (+)NCBI
Hnrnpk
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947122,185,614 - 122,197,809 (+)NCBI
SpeTri2.0NW_004936828827,660 - 839,088 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HNRNPK
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1030,975,693 - 30,987,940 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11030,975,639 - 30,987,955 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21035,102,731 - 35,115,113 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HNRNPK
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11294,768,403 - 94,789,957 (-)NCBIChlSab1.1chlSab2
ChlSab1.11294,768,403 - 94,789,957 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603883,198,762 - 83,211,203 (-)NCBIVero_WHO_p1.0
Hnrnpk
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248097,538,568 - 7,548,272 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
HNRPK-1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2176,272,905 - 6,273,699 (+)MAPPERmRatBN7.2
Rnor_6.0176,674,658 - 6,675,451NCBIRnor6.0
Rnor_5.0178,879,031 - 8,879,824UniSTSRnor5.0
RGSC_v3.41712,203,724 - 12,204,517UniSTSRGSC3.4
Celera176,382,625 - 6,383,418UniSTS
Cytogenetic Map17p14UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122871563Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17211514921881669Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17211514934551001Rat
631499Stl1Serum triglyceride level QTL 13.6blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)17327139827389946Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)17429913021293263Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17429913021293263Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17429913035837242Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17429913060781592Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17435448727028127Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17435448727028127Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17452803849528038Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17452803849528038Rat

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir450a1rno-miR-450a-5pMirtarbaseexternal_infoWestern blotFunctional MTI18230805

Predicted Target Of
Summary Value
Count of predictions:630
Count of miRNA genes:266
Interacting mature miRNAs:346
Transcripts:ENSRNOT00000025916, ENSRNOT00000025980
Prediction methods:Microtar, Miranda, Pita, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 2
Medium 3 43 57 41 19 41 8 11 72 35 41 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_057141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253552 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253553 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253554 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253555 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600445 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095314 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC111867 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC061867 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D17711 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000284 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000025916   ⟹   ENSRNOP00000025915
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl176,263,012 - 6,274,994 (+)Ensembl
Rnor_6.0 Ensembl176,667,564 - 6,676,654 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000025980   ⟹   ENSRNOP00000025980
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl176,262,998 - 6,274,997 (+)Ensembl
Rnor_6.0 Ensembl176,665,659 - 6,675,944 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000107930   ⟹   ENSRNOP00000080312
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl176,262,998 - 6,273,984 (+)Ensembl
RefSeq Acc Id: NM_057141   ⟹   NP_476482
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,265,812 - 6,274,902 (+)NCBI
Rnor_6.0176,667,564 - 6,676,654 (+)NCBI
Rnor_5.0178,868,934 - 8,881,126 (+)NCBI
RGSC_v3.41712,196,630 - 12,205,720 (+)RGD
Celera176,375,531 - 6,384,621 (+)RGD
Sequence:
RefSeq Acc Id: XM_006253553   ⟹   XP_006253615
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,264,183 - 6,275,001 (+)NCBI
Rnor_6.0176,665,969 - 6,676,753 (+)NCBI
Rnor_5.0178,868,934 - 8,881,126 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006253554   ⟹   XP_006253616
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,262,998 - 6,275,001 (+)NCBI
Rnor_6.0176,664,730 - 6,676,571 (+)NCBI
Rnor_5.0178,868,934 - 8,881,126 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006253555   ⟹   XP_006253617
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,263,129 - 6,275,001 (+)NCBI
Rnor_6.0176,664,730 - 6,676,753 (+)NCBI
Rnor_5.0178,868,934 - 8,881,126 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600445   ⟹   XP_017455934
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,263,129 - 6,275,001 (+)NCBI
Rnor_6.0176,664,730 - 6,676,753 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039095311   ⟹   XP_038951239
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,262,981 - 6,275,001 (+)NCBI
RefSeq Acc Id: XM_039095312   ⟹   XP_038951240
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,262,936 - 6,275,001 (+)NCBI
RefSeq Acc Id: XM_039095313   ⟹   XP_038951241
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,264,826 - 6,275,001 (+)NCBI
RefSeq Acc Id: XM_039095314   ⟹   XP_038951242
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,264,633 - 6,275,001 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_476482   ⟸   NM_057141
- UniProtKB: P61980 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006253617   ⟸   XM_006253555
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006253616   ⟸   XM_006253554
- Peptide Label: isoform X2
- UniProtKB: P61980 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006253615   ⟸   XM_006253553
- Peptide Label: isoform X1
- UniProtKB: Q5D059 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455934   ⟸   XM_017600445
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000025915   ⟸   ENSRNOT00000025916
RefSeq Acc Id: ENSRNOP00000025980   ⟸   ENSRNOT00000025980
RefSeq Acc Id: XP_038951240   ⟸   XM_039095312
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951239   ⟸   XM_039095311
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951242   ⟸   XM_039095314
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951241   ⟸   XM_039095313
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000080312   ⟸   ENSRNOT00000107930
Protein Domains
KH

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13700293
Promoter ID:EPDNEW_R10802
Type:initiation region
Name:Hnrnpk_1
Description:heterogeneous nuclear ribonucleoprotein K
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0176,665,619 - 6,665,679EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:71058 AgrOrtholog
Ensembl Genes ENSRNOG00000019113 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000025915 UniProtKB/Swiss-Prot
  ENSRNOP00000025980 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025916 UniProtKB/Swiss-Prot
  ENSRNOT00000025980 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1370.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5598872 IMAGE-MGC_LOAD
InterPro hnRNP_K UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  KH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  KH_dom_type_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  KH_dom_type_1_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ROK_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:117282 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72338 IMAGE-MGC_LOAD
NCBI Gene 117282 ENTREZGENE
PANTHER PTHR10288:SF262 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam KH_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ROKNT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hnrnpk PhenoGen
PROSITE KH_TYPE_1 UniProtKB/Swiss-Prot
SMART SM00322 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54791 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt HNRPK_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q5D059 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary Q07244 UniProtKB/Swiss-Prot
  Q15671 UniProtKB/Swiss-Prot
  Q60577 UniProtKB/Swiss-Prot
  Q922Y7 UniProtKB/Swiss-Prot
  Q96J62 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-05-19 Hnrnpk  heterogeneous nuclear ribonucleoprotein K  Hnrpk  heterogeneous nuclear ribonucleoprotein K  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-07-09 Hnrpk  heterogeneous nuclear ribonucleoprotein K      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression mRNA expressed in liver 728600
gene_function binds strongly to cytidine-rich (poly-C) sequence of single-stranded DNA, weakly to double-stranded DNA and C-rich RNA 728600
gene_protein putative protein contains 463 aa residues 728600