Srrd (SRR1 domain containing) - Rat Genome Database

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Gene: Srrd (SRR1 domain containing) Rattus norvegicus
Analyze
Symbol: Srrd
Name: SRR1 domain containing
RGD ID: 1562579
Description: Predicted to be involved in regulation of circadian rhythm and regulation of heme biosynthetic process. Predicted to be active in cytoplasm and nucleus. Orthologous to human SRRD (SRR1 domain containing); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; gentamycin.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC288717; RGD1562579; similar to SRR1-like protein; SRR1-like protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81249,955,081 - 49,960,693 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1249,954,882 - 49,963,366 (+)EnsemblGRCr8
mRatBN7.21244,294,675 - 44,300,287 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1244,294,271 - 44,300,287 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1245,463,654 - 45,469,266 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01246,073,930 - 46,079,542 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01245,134,468 - 45,140,080 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01250,315,876 - 50,321,488 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1250,315,933 - 50,321,144 (+)Ensemblrn6Rnor6.0
Rnor_5.01252,072,936 - 52,078,566 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41214,318,678 - 14,324,706 (-)ENTREZGENERGSC_v3.4RGSC_v3.4rn4
RGSC_v3.41914,318,678 - 14,324,706 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1245,877,839 - 45,883,451 (+)NCBICelera
Cytogenetic Map12q16NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (ISO)

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:28802827  


Genomics

Comparative Map Data
Srrd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81249,955,081 - 49,960,693 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1249,954,882 - 49,963,366 (+)EnsemblGRCr8
mRatBN7.21244,294,675 - 44,300,287 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1244,294,271 - 44,300,287 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1245,463,654 - 45,469,266 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01246,073,930 - 46,079,542 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01245,134,468 - 45,140,080 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01250,315,876 - 50,321,488 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1250,315,933 - 50,321,144 (+)Ensemblrn6Rnor6.0
Rnor_5.01252,072,936 - 52,078,566 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41214,318,678 - 14,324,706 (-)ENTREZGENERGSC_v3.4RGSC_v3.4rn4
RGSC_v3.41914,318,678 - 14,324,706 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1245,877,839 - 45,883,451 (+)NCBICelera
Cytogenetic Map12q16NCBI
SRRD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382226,483,877 - 26,494,658 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2226,483,877 - 26,494,658 (+)Ensemblhg38GRCh38
GRCh372226,879,843 - 26,890,624 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362225,209,850 - 25,217,904 (+)NCBIBuild 36Build 36hg18NCBI36
Celera2210,683,724 - 10,691,766 (+)NCBICelera
Cytogenetic Map22q12.1NCBI
HuRef229,827,403 - 9,835,469 (+)NCBIHuRef
CHM1_12226,839,268 - 26,847,300 (+)NCBICHM1_1
T2T-CHM13v2.02226,946,287 - 26,957,060 (+)NCBIT2T-CHM13v2.0
Srrd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395112,485,257 - 112,490,921 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5112,485,258 - 112,490,906 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm385112,337,391 - 112,343,040 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5112,337,392 - 112,343,040 (-)Ensemblmm10GRCm38
MGSCv375112,766,411 - 112,772,060 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv365112,577,651 - 112,583,345 (-)NCBIMGSCv36mm8
Celera5109,457,384 - 109,462,989 (-)NCBICelera
Cytogenetic Map5FNCBI
cM Map554.69NCBI
Srrd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554551,075,652 - 1,083,102 (+)Ensembl
ChiLan1.0NW_0049554551,076,113 - 1,090,346 (+)NCBIChiLan1.0ChiLan1.0
SRRD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22336,489,446 - 36,504,347 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12239,188,625 - 39,203,521 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0227,545,779 - 7,559,431 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12225,268,684 - 25,276,668 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2225,268,727 - 25,276,402 (+)EnsemblpanPan2panpan1.1
SRRD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12620,172,236 - 20,186,236 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2620,023,419 - 20,042,580 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02620,523,003 - 20,542,113 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2620,521,398 - 20,543,245 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12620,239,596 - 20,258,852 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02620,495,514 - 20,514,617 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02620,564,925 - 20,584,442 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Srrd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118114,758,191 - 114,765,874 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366571,104,833 - 1,112,374 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366571,104,833 - 1,112,854 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SRRD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1444,073,638 - 44,096,954 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11444,073,562 - 44,097,998 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21446,953,473 - 46,977,031 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SRRD
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1199,387,861 - 9,396,219 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl199,387,648 - 9,395,955 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666045116,707,973 - 116,717,014 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Srrd
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247473,033,745 - 3,041,090 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247473,033,705 - 3,041,667 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Srrd
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11641,631,871 - 41,637,396 (+)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:81
Count of miRNA genes:66
Interacting mature miRNAs:71
Transcripts:ENSRNOT00000000826
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)122480502252308831Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121613502952308831Rat
70213Niddm27Non-insulin dependent diabetes mellitus QTL 273.72blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121120049452308831Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121618743851213550Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)121120049452308831Rat
1331763Wbc2White blood cell count QTL 23.162leukocyte quantity (VT:0000217)total white blood cell count (CMO:0000365)121120049452308831Rat
8693635Alc28Alcohol consumption QTL 282.70.439drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)122871771850386405Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)121120049452308831Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)61120049452308831Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122598935552308831Rat
1300162Bp188Blood pressure QTL 1883.19arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123776414551558799Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121847304152308831Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121847304152308831Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)121526424852308831Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)121120049752308831Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)121174352852308831Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)121120049452308831Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)121120049452308831Rat
7243862Mcs30Mammary carcinoma susceptibility QTL 308.62mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)12563330650633306Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121613502952308831Rat
1300175Cm5Cardiac mass QTL 53.78heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)123370043251558799Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)121120049452308831Rat
1331786Kidm11Kidney mass QTL 113.571kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)121618743852308831Rat
631543Bp83Blood pressure QTL 835.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)124413955852308831Rat

Markers in Region
AA957943  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21244,300,129 - 44,300,250 (+)MAPPERmRatBN7.2
Rnor_6.01250,321,331 - 50,321,451NCBIRnor6.0
Rnor_5.01252,078,409 - 52,078,529UniSTSRnor5.0
RGSC_v3.41914,319,177 - 14,319,297UniSTSRGSC3.4
Celera1245,883,294 - 45,883,414UniSTS
RH 3.4 Map12776.22UniSTS
Cytogenetic Map19p11UniSTS
BI282368  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21244,299,873 - 44,300,088 (+)MAPPERmRatBN7.2
Rnor_6.01250,321,075 - 50,321,289NCBIRnor6.0
Rnor_5.01252,078,153 - 52,078,367UniSTSRnor5.0
RGSC_v3.41914,319,339 - 14,319,553UniSTSRGSC3.4
Celera1245,883,038 - 45,883,252UniSTS
Cytogenetic Map19p11UniSTS
AA957943  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21244,300,006 - 44,300,203 (+)MAPPERmRatBN7.2
Rnor_6.01250,321,208 - 50,321,404NCBIRnor6.0
Rnor_5.01252,078,286 - 52,078,482UniSTSRnor5.0
RGSC_v3.41914,319,224 - 14,319,420UniSTSRGSC3.4
Celera1245,883,171 - 45,883,367UniSTS
RH 3.4 Map12776.22UniSTS
Cytogenetic Map19p11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 160 91 90 59 92 59 6 356 192 11 139 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000000826   ⟹   ENSRNOP00000000826
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1244,294,708 - 44,300,282 (+)Ensembl
Rnor_6.0 Ensembl1250,315,933 - 50,321,144 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000101278   ⟹   ENSRNOP00000085262
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1249,954,882 - 49,963,366 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000114064   ⟹   ENSRNOP00000094420
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1244,294,271 - 44,300,287 (+)Ensembl
RefSeq Acc Id: NM_001305154   ⟹   NP_001292083
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81249,955,081 - 49,960,693 (+)NCBI
mRatBN7.21244,294,675 - 44,300,287 (+)NCBI
Rnor_6.01250,315,876 - 50,321,488 (+)NCBI
Celera1245,877,839 - 45,883,451 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001292083 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM14000 (Get FASTA)   NCBI Sequence Viewer  
  EDM14001 (Get FASTA)   NCBI Sequence Viewer  
  EDM14002 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000085262
RefSeq Acc Id: NP_001292083   ⟸   NM_001305154
- UniProtKB: A6J261 (UniProtKB/TrEMBL),   A0A8I6AKY0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000000826   ⟸   ENSRNOT00000000826
Ensembl Acc Id: ENSRNOP00000094420   ⟸   ENSRNOT00000114064
Ensembl Acc Id: ENSRNOP00000085262   ⟸   ENSRNOT00000101278
Protein Domains
SRR1-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LTK4-F1-model_v2 AlphaFold F1LTK4 1-246 view protein structure

Transcriptome

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

Promoters
RGD ID:13698743
Promoter ID:EPDNEW_R9252
Type:multiple initiation site
Name:Srrd_1
Description:Mus musculus SRR1 domain containing , transcript variant 1, mRNA.
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_6.01250,315,915 - 50,315,975EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562579 AgrOrtholog
BioCyc Gene G2FUF-18867 BioCyc
Ensembl Genes ENSRNOG00000000662 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000101278 ENTREZGENE
InterPro SRR1-like UniProtKB/TrEMBL
  SRR1L UniProtKB/TrEMBL
KEGG Report rno:288717 UniProtKB/TrEMBL
NCBI Gene 288717 ENTREZGENE
PANTHER PTHR28626 UniProtKB/TrEMBL
  SRR1-LIKE PROTEIN UniProtKB/TrEMBL
Pfam SRR1 UniProtKB/TrEMBL
PhenoGen Srrd PhenoGen
RatGTEx ENSRNOG00000000662 RatGTEx
UniProt A0A8I6AKY0 ENTREZGENE
  A6J261 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-31 Srrd  SRR1 domain containing  RGD1562579_predicted  similar to SRR1-like protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1562579_predicted  similar to SRR1-like protein (predicted)  LOC288717  similar to SRR1-like protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC288717  similar to SRR1-like protein      Symbol and Name status set to provisional 70820 PROVISIONAL