Stra6l (STRA6-like) - Rat Genome Database

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Gene: Stra6l (STRA6-like) Rattus norvegicus
Analyze
Symbol: Stra6l
Name: STRA6-like
RGD ID: 1305807
Description: Predicted to enable retinol transmembrane transporter activity and signaling receptor activity. Predicted to be involved in vitamin A import into cell. Predicted to act upstream of or within establishment of localization in cell and retinol transport. Predicted to be active in plasma membrane; INTERACTS WITH bisphenol A; cadmium dichloride; endosulfan.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical LOC298077; hypothetical protein LOC298077; LOC298077; MGC114401; RGD1305807; Stimulated by retinoic acid gene 6 protein-like; uncharacterized protein LOC298077
RGD Orthologs
Human
Mouse
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8564,902,552 - 64,944,216 (+)NCBIGRCr8
mRatBN7.2560,106,949 - 60,147,546 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl560,107,085 - 60,147,539 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx562,081,663 - 62,122,202 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0563,901,178 - 63,941,710 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0563,870,412 - 63,910,944 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0561,425,451 - 61,467,653 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl561,425,746 - 61,467,644 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0565,942,201 - 65,984,091 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4562,354,979 - 62,395,472 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1562,355,157 - 62,395,644 (+)NCBI
Celera558,671,663 - 58,712,010 (+)NCBICelera
Cytogenetic Map5q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
plasma membrane  (IBA,ISO)

Molecular Function

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:12477932  


Genomics

Comparative Map Data
Stra6l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8564,902,552 - 64,944,216 (+)NCBIGRCr8
mRatBN7.2560,106,949 - 60,147,546 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl560,107,085 - 60,147,539 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx562,081,663 - 62,122,202 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0563,901,178 - 63,941,710 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0563,870,412 - 63,910,944 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0561,425,451 - 61,467,653 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl561,425,746 - 61,467,644 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0565,942,201 - 65,984,091 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4562,354,979 - 62,395,472 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1562,355,157 - 62,395,644 (+)NCBI
Celera558,671,663 - 58,712,010 (+)NCBICelera
Cytogenetic Map5q22NCBI
STRA6LP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38997,290,853 - 97,294,111 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh379100,053,135 - 100,056,393 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map9q22.33NCBI
T2T-CHM13v2.09109,462,756 - 109,466,015 (+)NCBIT2T-CHM13v2.0
Stra6l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39445,818,940 - 45,887,010 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl445,848,664 - 45,887,008 (+)EnsemblGRCm39 Ensembl
GRCm38445,824,293 - 45,887,010 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl445,848,664 - 45,887,008 (+)EnsemblGRCm38mm10GRCm38
MGSCv37445,861,819 - 45,899,880 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36445,870,060 - 45,908,104 (+)NCBIMGSCv36mm8
Celera445,868,797 - 45,908,582 (+)NCBICelera
Cytogenetic Map4B1NCBI
cM Map424.39NCBI

Variants

.
Variants in Stra6l
153 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:58
Count of miRNA genes:47
Interacting mature miRNAs:57
Transcripts:ENSRNOT00000064113
Prediction methods:Miranda, 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.


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
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)558829236128034027Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)559793399143070159Rat
2316954Rf57Renal function QTL 570kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)55979352890450144Rat
2316957Pur21Proteinuria QTL 216.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)559793528113558156Rat

Markers in Region
AU048990  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2560,142,476 - 60,142,652 (+)MAPPERmRatBN7.2
Rnor_6.0561,461,516 - 61,461,687NCBIRnor6.0
Rnor_5.0565,977,954 - 65,978,125UniSTSRnor5.0
RGSC_v3.4562,390,407 - 62,390,578UniSTSRGSC3.4
Celera558,706,942 - 58,707,115UniSTS
Cytogenetic Map5q22UniSTS


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 31 31 31
Low 3 21 10 19 10 39 23 15 9
Below cutoff 26 5 6 6 19 12 25 2 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000064113   ⟹   ENSRNOP00000062894
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl560,115,159 - 60,147,539 (+)Ensembl
Rnor_6.0 Ensembl561,425,746 - 61,467,644 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000112739   ⟹   ENSRNOP00000081815
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl560,107,085 - 60,147,539 (+)Ensembl
RefSeq Acc Id: NM_001025276   ⟹   NP_001020447
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8564,902,711 - 64,943,156 (+)NCBI
mRatBN7.2560,107,085 - 60,147,546 (+)NCBI
Rnor_6.0561,426,063 - 61,466,581 (+)NCBI
Rnor_5.0565,942,201 - 65,984,091 (+)NCBI
RGSC_v3.4562,354,979 - 62,395,472 (+)RGD
Celera558,671,663 - 58,712,010 (+)RGD
Sequence:
RefSeq Acc Id: XM_006238038   ⟹   XP_006238100
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8564,902,552 - 64,944,216 (+)NCBI
mRatBN7.2560,106,949 - 60,147,535 (+)NCBI
Rnor_6.0561,425,813 - 61,467,653 (+)NCBI
Rnor_5.0565,942,201 - 65,984,091 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001020447 (Get FASTA)   NCBI Sequence Viewer  
  XP_006238100 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH97368 (Get FASTA)   NCBI Sequence Viewer  
  EDL98825 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000062894.2
  ENSRNOP00000081815
  ENSRNOP00000081815.1
Reference Protein Sequences
RefSeq Acc Id: NP_001020447   ⟸   NM_001025276
- UniProtKB: Q4QR84 (UniProtKB/TrEMBL),   A6IJA5 (UniProtKB/TrEMBL),   F7EQ25 (UniProtKB/TrEMBL),   A0A8I5ZVU0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006238100   ⟸   XM_006238038
- Peptide Label: isoform X1
- UniProtKB: F7EQ25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000062894   ⟸   ENSRNOT00000064113
RefSeq Acc Id: ENSRNOP00000081815   ⟸   ENSRNOT00000112739

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4QR84-F1-model_v2 AlphaFold Q4QR84 1-621 view protein structure

Transcriptome

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

Promoters
RGD ID:13693706
Promoter ID:EPDNEW_R4230
Type:initiation region
Name:RGD1305807_1
Description:hypothetical LOC298077
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_6.0561,425,987 - 61,426,047EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305807 AgrOrtholog
BioCyc Gene G2FUF-41434 BioCyc
Ensembl Genes ENSRNOG00000010497 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000064113.3 UniProtKB/TrEMBL
  ENSRNOT00000112739 ENTREZGENE
  ENSRNOT00000112739.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7443399 IMAGE-MGC_LOAD
InterPro STRA6-like UniProtKB/TrEMBL
KEGG Report rno:298077 UniProtKB/TrEMBL
MGC_CLONE MGC:114401 IMAGE-MGC_LOAD
NCBI Gene 298077 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 180 UniProtKB/TrEMBL
  STIMULATED BY RETINOIC ACID GENE 6 PROTEIN-LIKE UniProtKB/TrEMBL
Pfam RBP_receptor UniProtKB/TrEMBL
PhenoGen Stra6l PhenoGen
RatGTEx ENSRNOG00000010497 RatGTEx
UniProt A0A8I5ZVU0 ENTREZGENE, UniProtKB/TrEMBL
  A6IJA5 ENTREZGENE, UniProtKB/TrEMBL
  F7EQ25 ENTREZGENE, UniProtKB/TrEMBL
  Q4QR84 ENTREZGENE
UniProt Secondary Q4QR84 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-07-18 Stra6l  STRA6-like  RGD1305807  hypothetical LOC298077  Name and Symbol changed 629549 APPROVED
2005-12-06 RGD1305807  hypothetical LOC298077  RGD1305807_predicted  hypothetical LOC298077 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1305807_predicted  hypothetical LOC298077 (predicted)  LOC298077_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC298077_predicted  hypothetical LOC298077 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL