Srl (sarcalumenin) - Rat Genome Database

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Gene: Srl (sarcalumenin) Rattus norvegicus
Analyze
Symbol: Srl
Name: sarcalumenin
RGD ID: 1306564
Description: Predicted to enable GTP binding activity. Predicted to act upstream of or within response to muscle activity involved in regulation of muscle adaptation and store-operated calcium entry. Predicted to be located in membrane. Orthologous to human SRL (sarcalumenin); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC302948
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
GRCr81011,540,365 - 11,584,506 (+)NCBIGRCr8
mRatBN7.21011,033,976 - 11,078,103 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1011,034,035 - 11,078,101 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1015,742,180 - 15,786,241 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01015,230,991 - 15,275,057 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01010,900,416 - 10,944,328 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01011,240,135 - 11,284,325 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1011,240,138 - 11,284,332 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01010,002,567 - 10,045,906 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41011,174,718 - 11,218,663 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11011,174,704 - 11,216,843 (+)NCBI
Celera109,994,332 - 10,038,413 (+)NCBICelera
Cytogenetic Map10q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IEA)

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15998745   PMID:35352799  


Genomics

Comparative Map Data
Srl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81011,540,365 - 11,584,506 (+)NCBIGRCr8
mRatBN7.21011,033,976 - 11,078,103 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1011,034,035 - 11,078,101 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1015,742,180 - 15,786,241 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01015,230,991 - 15,275,057 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01010,900,416 - 10,944,328 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01011,240,135 - 11,284,325 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1011,240,138 - 11,284,332 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01010,002,567 - 10,045,906 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41011,174,718 - 11,218,663 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11011,174,704 - 11,216,843 (+)NCBI
Celera109,994,332 - 10,038,413 (+)NCBICelera
Cytogenetic Map10q12NCBI
SRL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38164,189,374 - 4,242,080 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl164,189,374 - 4,242,080 (-)EnsemblGRCh38hg38GRCh38
GRCh37164,239,375 - 4,292,081 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36164,179,376 - 4,232,082 (-)NCBINCBI36Build 36hg18NCBI36
Celera164,446,058 - 4,499,081 (-)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef164,206,950 - 4,259,095 (-)NCBIHuRef
CHM1_1164,239,343 - 4,291,673 (-)NCBICHM1_1
T2T-CHM13v2.0164,216,710 - 4,269,414 (-)NCBIT2T-CHM13v2.0
Srl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39164,294,843 - 4,359,772 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl164,298,080 - 4,359,680 (-)EnsemblGRCm39 Ensembl
GRCm38164,476,979 - 4,541,908 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl164,480,216 - 4,541,816 (-)EnsemblGRCm38mm10GRCm38
MGSCv37164,480,228 - 4,523,053 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36164,395,456 - 4,438,281 (-)NCBIMGSCv36mm8
Celera165,108,501 - 5,151,358 (-)NCBICelera
Cytogenetic Map16A1NCBI
cM Map162.44NCBI
Srl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544213,200,440 - 13,238,227 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544213,200,237 - 13,242,816 (+)NCBIChiLan1.0ChiLan1.0
SRL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2184,710,312 - 4,780,107 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1168,494,762 - 8,564,430 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0163,107,619 - 3,161,180 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1164,280,767 - 4,332,786 (-)NCBIpanpan1.1PanPan1.1panPan2
SRL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1637,113,398 - 37,163,133 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl637,124,499 - 37,160,955 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha638,441,369 - 38,491,141 (+)NCBIDog10K_Boxer_Tasha
Srl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344106,434,393 - 106,485,464 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004936694224,023 - 275,069 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SRL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl338,073,562 - 38,111,932 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1338,073,379 - 38,111,936 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2339,240,792 - 39,264,478 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SRL
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.153,861,921 - 3,928,865 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606826,764,018 - 26,830,961 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Srl
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248241,981,609 - 2,021,159 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248241,979,539 - 2,041,085 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Srl
209 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1320
Count of miRNA genes:330
Interacting mature miRNAs:430
Transcripts:ENSRNOT00000048687, ENSRNOT00000073563
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 (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)compact 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

Markers in Region
D10Rat51  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21011,072,115 - 11,072,299 (+)MAPPERmRatBN7.2
Rnor_6.01011,278,340 - 11,278,521NCBIRnor6.0
Rnor_5.01010,039,921 - 10,040,102UniSTSRnor5.0
RGSC_v3.41011,212,678 - 11,212,859UniSTSRGSC3.4
RGSC_v3.11011,212,677 - 11,212,857RGD
Celera1010,032,428 - 10,032,609UniSTS
RH 3.4 Map10127.93RGD
RH 3.4 Map10127.93UniSTS
RH 2.0 Map1054.1RGD
SHRSP x BN Map106.1RGD
Cytogenetic Map10q12UniSTS
D10Got24  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21011,035,565 - 11,035,813 (+)MAPPERmRatBN7.2
Rnor_6.01011,241,687 - 11,241,934NCBIRnor6.0
Rnor_5.01010,004,114 - 10,004,361UniSTSRnor5.0
RGSC_v3.41011,176,232 - 11,176,480RGDRGSC3.4
RGSC_v3.41011,176,233 - 11,176,480UniSTSRGSC3.4
RGSC_v3.11011,176,232 - 11,176,480RGD
Celera109,995,884 - 9,996,100UniSTS
RH 2.0 Map1074.0RGD
Cytogenetic Map10q12UniSTS
BF396476  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21011,068,138 - 11,068,356 (+)MAPPERmRatBN7.2
Rnor_6.01011,274,363 - 11,274,580NCBIRnor6.0
Rnor_5.01010,035,944 - 10,036,161UniSTSRnor5.0
RGSC_v3.41011,208,701 - 11,208,918UniSTSRGSC3.4
Celera1010,028,451 - 10,028,668UniSTS
Cytogenetic Map10q12UniSTS
SRL__5315  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21011,075,202 - 11,075,852 (+)MAPPERmRatBN7.2
Rnor_6.01011,281,425 - 11,282,074NCBIRnor6.0
Rnor_5.01010,043,006 - 10,043,655UniSTSRnor5.0
RGSC_v3.41011,215,763 - 11,216,412UniSTSRGSC3.4
Celera1010,035,513 - 10,036,162UniSTS
Cytogenetic Map10q12UniSTS


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 43 8 11 3 7 8
Low 3 25 10 15 10 16 31 32 3
Below cutoff 15 14 4 14 50 4 6 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000048687   ⟹   ENSRNOP00000039064
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1011,034,035 - 11,078,101 (+)Ensembl
Rnor_6.0 Ensembl1011,240,138 - 11,284,332 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000107270   ⟹   ENSRNOP00000082346
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1011,059,008 - 11,078,101 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000111240   ⟹   ENSRNOP00000086189
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1011,034,035 - 11,078,101 (+)Ensembl
RefSeq Acc Id: NM_001371633   ⟹   NP_001358562
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81011,540,443 - 11,584,506 (+)NCBI
mRatBN7.21011,034,035 - 11,078,103 (+)NCBI
RefSeq Acc Id: NM_001371781   ⟹   NP_001358710
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81011,540,443 - 11,584,506 (+)NCBI
mRatBN7.21011,034,035 - 11,078,103 (+)NCBI
RefSeq Acc Id: XM_063268900   ⟹   XP_063124970
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81011,540,386 - 11,584,506 (+)NCBI
RefSeq Acc Id: XM_063268901   ⟹   XP_063124971
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81011,540,365 - 11,584,506 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000039064   ⟸   ENSRNOT00000048687
RefSeq Acc Id: NP_001358562   ⟸   NM_001371633
- Peptide Label: isoform 1 precursor
- UniProtKB: F1LWG8 (UniProtKB/TrEMBL),   A0A8I6G9C9 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001358710   ⟸   NM_001371781
- Peptide Label: isoform 2 precursor
- UniProtKB: A0A8I6A0R8 (UniProtKB/TrEMBL),   A6K4S8 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000086189   ⟸   ENSRNOT00000111240
RefSeq Acc Id: ENSRNOP00000082346   ⟸   ENSRNOT00000107270
RefSeq Acc Id: XP_063124971   ⟸   XM_063268901
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063124970   ⟸   XM_063268900
- Peptide Label: isoform X1
Protein Domains
Dynamin-type G

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LWG8-F1-model_v2 AlphaFold F1LWG8 1-904 view protein structure

Transcriptome

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

Promoters
RGD ID:13696979
Promoter ID:EPDNEW_R7502
Type:single initiation site
Name:Srl_1
Description:sarcalumenin
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_6.01011,240,162 - 11,240,222EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306564 AgrOrtholog
BioCyc Gene G2FUF-26022 BioCyc
Ensembl Genes ENSRNOG00000005269 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000048687 ENTREZGENE
  ENSRNOT00000048687.7 UniProtKB/TrEMBL
  ENSRNOT00000107270.1 UniProtKB/TrEMBL
  ENSRNOT00000111240 ENTREZGENE
  ENSRNOT00000111240.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.268.20 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro Dynamin_N UniProtKB/TrEMBL
  EHD_N UniProtKB/TrEMBL
  G_DYNAMIN_dom UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
NCBI Gene 302948 ENTREZGENE
PANTHER SARCALUMENIN UniProtKB/TrEMBL
  TRANSMEMBRANE GTPASE FZO UniProtKB/TrEMBL
Pfam Dynamin_N UniProtKB/TrEMBL
  EHD_N UniProtKB/TrEMBL
PhenoGen Srl PhenoGen
PROSITE G_DYNAMIN_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000005269 RatGTEx
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A8I6A0R8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6G9C9 ENTREZGENE, UniProtKB/TrEMBL
  A6K4S8 ENTREZGENE, UniProtKB/TrEMBL
  F1LWG8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Srl  sarcalumenin   Srl_predicted  sarcalumenin (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Srl_predicted  sarcalumenin (predicted)      Symbol and Name status set to approved 70820 APPROVED