LOC100359916 (heterogeneous nuclear ribonucleoprotein K-like) - Rat Genome Database

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Gene: LOC100359916 (heterogeneous nuclear ribonucleoprotein K-like) Rattus norvegicus
Analyze
No known orthologs.
Symbol: LOC100359916
Name: heterogeneous nuclear ribonucleoprotein K-like
RGD ID: 2323128
Description: Predicted to enable DNA binding activity. Predicted to be located in nucleoplasm and podosome. Predicted to be part of spliceosomal complex.
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2558,668,326 - 58,670,222 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl558,668,327 - 58,670,220 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0559,911,439 - 59,913,324 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl559,911,431 - 59,913,348 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0564,434,070 - 64,435,955 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4560,919,364 - 60,920,755 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic Map5q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. 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.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:22082260  


Genomics

Variants

.
Variants in LOC100359916
3 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:24
Count of miRNA genes:23
Interacting mature miRNAs:24
Transcripts:ENSRNOT00000018164
Prediction methods: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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5228222669540447Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51887394763873947Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)51887394774251464Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52122674466226744Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)52795544072955440Rat
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)52795544072955440Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)52851548973515489Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)52851548973515489Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53321566578215665Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53321566578215665Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53321566578215665Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)534730116104251008Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)534944474113558310Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)53518915368564008Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54372665686724018Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54786906290099692Rat
9589025Epfw7Epididymal fat weight QTL 720.660.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)54946360094463600Rat
7411561Bw134Body weight QTL 134240.001body mass (VT:0001259)body weight gain (CMO:0000420)54946360094463600Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)550328551141643988Rat
2303615Vencon7Ventilatory control QTL 70.001respiration trait (VT:0001943)respiration rate (CMO:0000289)55098389595983895Rat
2303574Gluco42Glucose level QTL 422blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)55349671998496719Rat
61359EaexExperimental allergic encephalomyelitis QTL x3nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)555715622100715622Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555805606132207589Rat


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 1 1 1 1
Low 2 33 50 38 16 38 1 4 72 31 39 10 1
Below cutoff 10 7 3 2 3 6 6 1 4 2 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000018164   ⟹   ENSRNOP00000066172
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl558,668,327 - 58,670,220 (-)Ensembl
Rnor_6.0 Ensembl559,911,431 - 59,913,348 (-)Ensembl
RefSeq Acc Id: XM_039111019   ⟹   XP_038966947
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2558,668,326 - 58,670,222 (-)NCBI
Protein Sequences
Protein RefSeqs XP_038966947 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000066172   ⟸   ENSRNOT00000018164
RefSeq Acc Id: XP_038966947   ⟸   XM_039111019
- UniProtKB: M0R9K1 (UniProtKB/TrEMBL),   F8WG62 (UniProtKB/TrEMBL)
Protein Domains
K Homology

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R9K1-F1-model_v2 AlphaFold M0R9K1 1-463 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2323128 AgrOrtholog
BioCyc Gene G2FUF-41468 BioCyc
Ensembl Genes ENSRNOG00000013579 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000019113 UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000025980.6 UniProtKB/TrEMBL
  ENSRNOP00000066172 ENTREZGENE
  ENSRNOP00000066172.3 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018164 ENTREZGENE
  ENSRNOT00000018164.7 UniProtKB/TrEMBL
  ENSRNOT00000025980.8 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1370.10 UniProtKB/TrEMBL
InterPro KH_dom UniProtKB/TrEMBL
  KH_dom_type_1 UniProtKB/TrEMBL
  KH_dom_type_1_sf UniProtKB/TrEMBL
  ROK_N UniProtKB/TrEMBL
NCBI Gene 100359916 ENTREZGENE
PANTHER HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN K UniProtKB/TrEMBL
  KH DOMAIN CONTAINING RNA BINDING PROTEIN UniProtKB/TrEMBL
Pfam KH_1 UniProtKB/TrEMBL
  ROKNT UniProtKB/TrEMBL
PhenoGen LOC100359916 PhenoGen
PROSITE KH_TYPE_1 UniProtKB/TrEMBL
SMART SM00322 UniProtKB/TrEMBL
Superfamily-SCOP SSF54791 UniProtKB/TrEMBL
UniProt F8WG62 ENTREZGENE, UniProtKB/TrEMBL
  M0R9K1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-05-06 LOC100359916  heterogeneous nuclear ribonucleoprotein K-like      Symbol and Name status set to provisional 70820 PROVISIONAL