Srrm2 (serine/arginine repetitive matrix 2) - Rat Genome Database

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Gene: Srrm2 (serine/arginine repetitive matrix 2) Rattus norvegicus
Analyze
Symbol: Srrm2
Name: serine/arginine repetitive matrix 2
RGD ID: 1310163
Description: Predicted to enable C2H2 zinc finger domain binding activity; mRNA binding activity; and protein N-terminus binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in Cajal body and nuclear speck. Predicted to be part of U2-type catalytic step 2 spliceosome and U2-type precatalytic spliceosome. Orthologous to human SRRM2 (serine/arginine repetitive matrix 2); PARTICIPATES IN spliceosome pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; azoxystrobin.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC302969; serine/arginine repetitive matrix protein 2
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
mRatBN7.21012,815,471 - 12,848,750 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1012,815,471 - 12,848,751 (+)Ensembl
Rnor_6.01013,128,820 - 13,162,956 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1013,145,099 - 13,162,343 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01012,948,282 - 12,982,941 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41013,066,871 - 13,081,983 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11013,051,311 - 13,084,720 (+)NCBI
Celera1012,510,616 - 12,543,690 (+)NCBICelera
Cytogenetic Map10q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
2-methylcholine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
aflatoxin B1  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
azoxystrobin  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
Brodifacoum  (EXP)
buspirone  (EXP)
butanal  (ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
chloropicrin  (ISO)
chloroprene  (EXP)
chlorpyrifos  (EXP)
choline  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
coumestrol  (ISO)
cyclosporin A  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
diazinon  (ISO)
dicrotophos  (ISO)
dioxygen  (ISO)
diuron  (EXP)
elemental selenium  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
fenthion  (ISO)
folic acid  (ISO)
geldanamycin  (ISO)
gentamycin  (EXP)
glyphosate  (EXP)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
imidacloprid  (EXP)
indometacin  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
menadione  (ISO)
methamphetamine  (ISO)
methapyrilene  (EXP)
methidathion  (ISO)
phenobarbital  (ISO)
PhIP  (ISO)
propiconazole  (ISO)
quercitrin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (EXP,ISO)
selenium atom  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
testosterone enanthate  (ISO)
tetraphene  (ISO)
thiabendazole  (EXP)
thimerosal  (ISO)
titanium dioxide  (ISO)
triphenyl phosphate  (EXP)
triptonide  (ISO)
troglitazone  (ISO)
trovafloxacin  (EXP)
tungsten  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
vorinostat  (ISO)
xylitol  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors. Chen YI, etal., Nucleic Acids Res. 2007;35(12):3928-44. Epub 2007 May 30.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation
6. SRRM2, a potential blood biomarker revealing high alternative splicing in Parkinson's disease. Shehadeh LA, etal., PLoS One. 2010 Feb 8;5(2):e9104. doi: 10.1371/journal.pone.0009104.
Additional References at PubMed
PMID:11991638   PMID:12477932   PMID:17577209   PMID:22658674   PMID:22681889   PMID:28076346   PMID:29361316   PMID:31505169  


Genomics

Comparative Map Data
Srrm2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21012,815,471 - 12,848,750 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1012,815,471 - 12,848,751 (+)Ensembl
Rnor_6.01013,128,820 - 13,162,956 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1013,145,099 - 13,162,343 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01012,948,282 - 12,982,941 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41013,066,871 - 13,081,983 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11013,051,311 - 13,084,720 (+)NCBI
Celera1012,510,616 - 12,543,690 (+)NCBICelera
Cytogenetic Map10q12NCBI
SRRM2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38162,752,638 - 2,771,412 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl162,752,626 - 2,772,538 (+)EnsemblGRCh38hg38GRCh38
GRCh37162,802,639 - 2,821,413 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36162,742,331 - 2,761,414 (+)NCBINCBI36hg18NCBI36
Build 34162,742,654 - 2,761,412NCBI
Celera163,001,895 - 3,020,980 (+)NCBI
Cytogenetic Map16p13.3NCBI
HuRef162,769,571 - 2,788,653 (+)NCBIHuRef
CHM1_1162,802,386 - 2,821,457 (+)NCBICHM1_1
T2T-CHM13v2.0162,772,853 - 2,791,630 (+)NCBI
Srrm2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391724,009,501 - 24,043,715 (+)NCBIGRCm39mm39
GRCm39 Ensembl1724,009,506 - 24,043,715 (+)Ensembl
GRCm381723,790,527 - 23,824,741 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1723,790,532 - 23,824,741 (+)EnsemblGRCm38mm10GRCm38
MGSCv371723,940,154 - 23,961,708 (+)NCBIGRCm37mm9NCBIm37
MGSCv361723,530,848 - 23,552,358 (+)NCBImm8
Celera1724,297,071 - 24,319,127 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
Srrm2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544214,482,154 - 14,497,639 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544214,478,350 - 14,498,152 (+)NCBIChiLan1.0ChiLan1.0
SRRM2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1162,865,810 - 2,884,902 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl162,865,810 - 2,884,902 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0161,612,386 - 1,631,177 (+)NCBIMhudiblu_PPA_v0panPan3
SRRM2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1638,291,847 - 38,310,624 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl638,291,842 - 38,393,924 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha639,532,055 - 39,550,491 (+)NCBI
ROS_Cfam_1.0638,602,410 - 38,620,868 (+)NCBI
ROS_Cfam_1.0 Ensembl638,602,405 - 38,620,865 (+)Ensembl
UMICH_Zoey_3.1638,288,079 - 38,306,513 (+)NCBI
UNSW_CanFamBas_1.0638,260,566 - 38,278,981 (+)NCBI
UU_Cfam_GSD_1.0638,736,665 - 38,755,113 (+)NCBI
Srrm2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344105,413,162 - 105,429,336 (-)NCBI
SpeTri2.0NW_0049366941,280,104 - 1,296,301 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SRRM2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl339,275,288 - 39,293,747 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1339,275,274 - 39,293,741 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2340,613,487 - 40,631,943 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SRRM2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.152,570,566 - 2,589,355 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl52,571,109 - 2,585,640 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606828,322,637 - 28,342,292 (+)NCBIVero_WHO_p1.0
Srrm2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624824594,790 - 609,750 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_004624824594,203 - 613,225 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH129535  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21012,848,458 - 12,848,670 (+)MAPPERmRatBN7.2
Rnor_6.01013,162,665 - 13,162,876NCBIRnor6.0
Rnor_5.01012,982,650 - 12,982,861UniSTSRnor5.0
RGSC_v3.41013,084,446 - 13,084,657UniSTSRGSC3.4
Celera1012,543,399 - 12,543,610UniSTS
RH 3.4 Map10143.67UniSTS
Cytogenetic Map10q12UniSTS
BF403722  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21012,840,605 - 12,840,819 (+)MAPPERmRatBN7.2
Rnor_6.01013,154,812 - 13,155,025NCBIRnor6.0
Rnor_5.01012,974,797 - 12,975,010UniSTSRnor5.0
RGSC_v3.41013,076,593 - 13,076,806UniSTSRGSC3.4
Celera1012,535,546 - 12,535,759UniSTS
Cytogenetic Map10q12UniSTS
RH137181  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21012,848,480 - 12,848,669 (+)MAPPERmRatBN7.2
Rnor_6.01013,162,687 - 13,162,875NCBIRnor6.0
Rnor_5.01012,982,672 - 12,982,860UniSTSRnor5.0
RGSC_v3.41013,084,468 - 13,084,656UniSTSRGSC3.4
Celera1012,543,421 - 12,543,609UniSTS
Cytogenetic Map10q12UniSTS
AU049834  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21012,823,638 - 12,823,935 (+)MAPPERmRatBN7.2
Rnor_6.01013,137,138 - 13,137,434NCBIRnor6.0
Rnor_5.01012,956,525 - 12,956,821UniSTSRnor5.0
RGSC_v3.41013,059,511 - 13,059,807UniSTSRGSC3.4
Celera1012,518,669 - 12,518,967UniSTS
Cytogenetic Map10q12UniSTS
MARC_7863-7864:996688108:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21012,832,285 - 12,833,447 (+)MAPPERmRatBN7.2
Rnor_6.01013,146,493 - 13,147,654NCBIRnor6.0
Rnor_5.01012,966,478 - 12,967,639UniSTSRnor5.0
RGSC_v3.41013,068,273 - 13,069,435UniSTSRGSC3.4
Celera1012,527,351 - 12,528,512UniSTS
Cytogenetic Map10q12UniSTS
TCEB2_3482  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21012,848,707 - 12,849,002 (+)MAPPERmRatBN7.2
Rnor_6.01013,162,914 - 13,163,208NCBIRnor6.0
Rnor_5.01012,982,899 - 12,983,193UniSTSRnor5.0
RGSC_v3.41013,084,695 - 13,084,989UniSTSRGSC3.4
Celera1012,543,648 - 12,543,942UniSTS
Cytogenetic Map10q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402717245662Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402719233348Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10615418215990232Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:97
Count of miRNA genes:78
Interacting mature miRNAs:80
Transcripts:ENSRNOT00000006370
Prediction methods:Microtar, Miranda, Rnahybrid
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
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001277154 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085853 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085855 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085856 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005489789 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005489790 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005489791 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005489792 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005489793 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC089967 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC105850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC166455 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217119 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229608 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234036 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234701 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234799 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000091287   ⟹   ENSRNOP00000072307
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1012,815,471 - 12,848,167 (+)Ensembl
Rnor_6.0 Ensembl1013,145,099 - 13,162,343 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000100880   ⟹   ENSRNOP00000083591
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1012,815,471 - 12,848,750 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113307   ⟹   ENSRNOP00000086369
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1012,815,471 - 12,848,751 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000116501   ⟹   ENSRNOP00000078271
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1012,815,471 - 12,848,733 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000116530   ⟹   ENSRNOP00000086062
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1012,815,471 - 12,848,520 (+)Ensembl
RefSeq Acc Id: NM_001277154   ⟹   NP_001264083
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21012,815,471 - 12,848,750 (+)NCBI
Rnor_6.01013,128,820 - 13,162,956 (+)NCBI
Rnor_5.01012,948,282 - 12,982,941 (+)NCBI
Celera1012,510,616 - 12,543,690 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039085853   ⟹   XP_038941781
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21012,827,087 - 12,848,745 (+)NCBI
RefSeq Acc Id: XM_039085854   ⟹   XP_038941782
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21012,827,087 - 12,848,733 (+)NCBI
RefSeq Acc Id: XM_039085855   ⟹   XP_038941783
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21012,827,087 - 12,848,733 (+)NCBI
RefSeq Acc Id: XM_039085856   ⟹   XP_038941784
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21012,827,087 - 12,836,653 (+)NCBI
RefSeq Acc Id: XR_005489789
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21012,827,087 - 12,848,745 (+)NCBI
RefSeq Acc Id: XR_005489790
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21012,827,087 - 12,848,042 (+)NCBI
RefSeq Acc Id: XR_005489791
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21012,827,087 - 12,848,745 (+)NCBI
RefSeq Acc Id: XR_005489792
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21012,827,087 - 12,846,615 (+)NCBI
RefSeq Acc Id: XR_005489793
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21012,845,722 - 12,848,745 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001264083   ⟸   NM_001277154
- UniProtKB: B2GUY6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000072307   ⟸   ENSRNOT00000091287
RefSeq Acc Id: XP_038941781   ⟸   XM_039085853
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038941782   ⟸   XM_039085854
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038941783   ⟸   XM_039085855
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038941784   ⟸   XM_039085856
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000078271   ⟸   ENSRNOT00000116501
RefSeq Acc Id: ENSRNOP00000083591   ⟸   ENSRNOT00000100880
RefSeq Acc Id: ENSRNOP00000086062   ⟸   ENSRNOT00000116530
RefSeq Acc Id: ENSRNOP00000086369   ⟸   ENSRNOT00000113307

Transcriptome

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


Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
BUF/N (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
DA/OlaHsd (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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/Stm (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
GK/FarMcwi (2019)
Visual CSV TAB Printer
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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
LEW/Crl (2019)
Visual CSV TAB Printer
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
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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/NRrrcMcwi (2019)
Visual CSV TAB Printer
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
MR/N (2020)
Visual CSV TAB Printer
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
MWF/Hsd (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
SR/JrHsd (2020)
Visual CSV TAB Printer
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
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
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
WAG/RijCrl (2020)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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/NCrl (2019)
Visual CSV TAB Printer
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
WN/N (2020)
Visual CSV TAB Printer
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
Damaging Variants


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
10 12845018 12845019 A T snv MR/N (2020)
10 12846657 12846658 G T snv MR/N (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310163 AgrOrtholog
BioCyc Gene G2FUF-25904 BioCyc
Ensembl Genes ENSRNOG00000058561 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000072307.2 UniProtKB/TrEMBL
  ENSRNOP00000078271.1 UniProtKB/TrEMBL
  ENSRNOP00000083591 ENTREZGENE
  ENSRNOP00000083591.1 UniProtKB/TrEMBL
  ENSRNOP00000086062.1 UniProtKB/TrEMBL
  ENSRNOP00000086369.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000091287.2 UniProtKB/TrEMBL
  ENSRNOT00000100880 ENTREZGENE
  ENSRNOT00000100880.1 UniProtKB/TrEMBL
  ENSRNOT00000113307.1 UniProtKB/TrEMBL
  ENSRNOT00000116501.1 UniProtKB/TrEMBL
  ENSRNOT00000116530.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9022920 IMAGE-MGC_LOAD
InterPro mRNA_splic_Cwf21 UniProtKB/TrEMBL
  Spt5_C_dom UniProtKB/TrEMBL
KEGG Report rno:302969 UniProtKB/TrEMBL
MGC_CLONE MGC:187722 IMAGE-MGC_LOAD
NCBI Gene 302969 ENTREZGENE
Pfam cwf21 UniProtKB/TrEMBL
PhenoGen Srrm2 PhenoGen
SMART CTD UniProtKB/TrEMBL
UniProt A0A0G2K2M9_RAT UniProtKB/TrEMBL
  A0A8I6A0A2_RAT UniProtKB/TrEMBL
  A0A8I6A2Y2_RAT UniProtKB/TrEMBL
  A0A8I6G2I7_RAT UniProtKB/TrEMBL
  A0A8I6GDZ4_RAT UniProtKB/TrEMBL
  B2GUY6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Srrm2  serine/arginine repetitive matrix 2   Srrm2_predicted  serine/arginine repetitive matrix 2 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Srrm2_predicted  serine/arginine repetitive matrix 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED