Sectm1a (secreted and transmembrane 1A) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Sectm1a (secreted and transmembrane 1A) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Sectm1a
Name: secreted and transmembrane 1A
RGD ID: 1305973
Description: Predicted to enable cytokine activity. Predicted to be involved in immune response and signal transduction. Predicted to be active in membrane. Orthologous to human SECTM1 (secreted and transmembrane 1).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC287885; secreted and transmembrane 1; Sectm1
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr810106,835,948 - 106,847,005 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl10106,835,584 - 106,846,934 (-)EnsemblGRCr8
mRatBN7.210106,337,623 - 106,348,656 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10106,337,624 - 106,348,601 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx10111,441,312 - 111,452,326 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.010110,904,372 - 110,915,388 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.010106,258,074 - 106,269,056 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.010110,263,782 - 110,274,797 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10110,263,783 - 110,274,768 (-)Ensemblrn6Rnor6.0
Rnor_5.010109,850,607 - 109,861,612 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.410110,283,747 - 110,294,733 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera10104,876,384 - 104,887,372 (-)NCBICelera
RGSC_v3.110110,298,251 - 110,309,237 (-)NCBI
Cytogenetic Map10q32.3NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IBA)

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Genomics

Variants

.
Variants in Sectm1a
58 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:328
Count of miRNA genes:195
Interacting mature miRNAs:230
Transcripts:ENSRNOT00000054931
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
7387312Bw125Body weight QTL 12530.0047retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight (CMO:0000356)1065390777107713808Rat
1354641Bvd2Brain ventricular dilatation QTL 26.360.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)1093723381107556066Rat
8657410Bp374Blood pressure QTL 374heart left ventricle size trait (VT:0002753)heart left ventricle end-diastolic diameter (CMO:0000982)1067476608107713808Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063719161107713808Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1052269185107713808Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042546145107713808Rat
12903252Cm113Cardiac mass QTL 1130.047heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)1066817119107713808Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068920187107713808Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1064939013107713808Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1076951790107713808Rat
1358915Stresp7Stress response QTL 73.52blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)1065307813107713808Rat
70168Eae12Experimental allergic encephalomyelitis QTL 120.0009nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)1073599825107713808Rat
634320Niddm49Non-insulin dependent diabetes mellitus QTL 494.41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1089039175107713808Rat
70363Bp71Blood pressure QTL 710.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1061843496106843496Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1054296227107713808Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1070698731107713808Rat
1576313Pia25Pristane induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1096620293107713808Rat
12903269Am15Aortic mass QTL 150.042aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1066817119107713808Rat
12903266Cm114Cardiac mass QTL 1140.02heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)1066817119107713808Rat
1578672Bmd16Bone mineral density QTL 166.2femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)1097202388107556066Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
1576307Cia28Collagen induced arthritis QTL 28joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1096620293107713808Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040535708107713808Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040535708107713808Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062556066107556066Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014991535107713808Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040535708107713808Rat
1581559Eae18Experimental allergic encephalomyelitis QTL 180.00002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1066108888107555881Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072724423107713808Rat
12880372Am12Aortic mass QTL 120.003aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1066817119107713808Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062556066107556066Rat
61363Oia3Oil induced arthritis QTL 30.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1087807758107713808Rat
12880375Kidm66Kidney mass QTL 660.009kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1066817119107713808Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014991535107556066Rat
12880370Cm105Cardiac mass QTL 1050.008heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)1066817119107713808Rat
1600367Mcs15Mammary carcinoma susceptibility QTL 154.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072724423107713808Rat
12880371Cm106Cardiac mass QTL 1060.007heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)1066817119107713808Rat
631537Oia4Oil induced arthritis QTL 4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1076128947107713808Rat
1300137Bp186Blood pressure QTL 1863.57arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1091127270107556066Rat
634354Rends3Renal damage susceptibility QTL 30.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)1061997479106997479Rat
61436Cia5Collagen induced arthritis QTL 54.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1091727883107713808Rat
11565453Kidm58Kidney mass QTL 580.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1066817119107713808Rat
2301405Cm69Cardiac mass QTL 690.031heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)1066817119107713808Rat
1578663Bss18Bone structure and strength QTL 183.6femur width (VT:1000666)femoral neck width (CMO:0001695)1097202388107556066Rat


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 10 57 129 91 90 59 51 59 6 287 139 11 100 65 87 31 10 10

Sequence


Ensembl Acc Id: ENSRNOT00000054931   ⟹   ENSRNOP00000051814
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl10106,835,949 - 106,846,934 (-)Ensembl
mRatBN7.2 Ensembl10106,337,624 - 106,348,601 (-)Ensembl
Rnor_6.0 Ensembl10110,263,783 - 110,274,768 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000101568   ⟹   ENSRNOP00000081653
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl10106,837,376 - 106,846,934 (-)Ensembl
mRatBN7.2 Ensembl10106,339,051 - 106,348,601 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000106292   ⟹   ENSRNOP00000090881
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl10106,835,952 - 106,846,934 (-)Ensembl
mRatBN7.2 Ensembl10106,337,627 - 106,348,601 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000115371   ⟹   ENSRNOP00000092336
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl10106,835,949 - 106,839,716 (-)Ensembl
mRatBN7.2 Ensembl10106,337,624 - 106,341,391 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000158674   ⟹   ENSRNOP00000105201
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl10106,835,584 - 106,846,934 (-)Ensembl
RefSeq Acc Id: NM_001013043   ⟹   NP_001013061
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810106,835,948 - 106,846,934 (-)NCBI
mRatBN7.210106,337,623 - 106,348,601 (-)NCBI
Rnor_6.010110,263,782 - 110,274,768 (-)NCBI
Rnor_5.010109,850,607 - 109,861,612 (-)NCBI
RGSC_v3.410110,283,747 - 110,294,733 (-)RGD
Celera10104,876,384 - 104,887,372 (-)RGD
Sequence:
RefSeq Acc Id: XM_006247885   ⟹   XP_006247947
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810106,835,952 - 106,847,005 (-)NCBI
mRatBN7.210106,337,627 - 106,348,656 (-)NCBI
Rnor_6.010110,263,786 - 110,274,797 (-)NCBI
Rnor_5.010109,850,607 - 109,861,612 (-)NCBI
Sequence:
RefSeq Acc Id: NP_001013061   ⟸   NM_001013043
- Peptide Label: precursor
- UniProtKB: Q6AYS0 (UniProtKB/TrEMBL),   A0A8I5ZTC8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006247947   ⟸   XM_006247885
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AEM6 (UniProtKB/TrEMBL),   A6HLM4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000051814   ⟸   ENSRNOT00000054931
Ensembl Acc Id: ENSRNOP00000090881   ⟸   ENSRNOT00000106292
Ensembl Acc Id: ENSRNOP00000092336   ⟸   ENSRNOT00000115371
Ensembl Acc Id: ENSRNOP00000081653   ⟸   ENSRNOT00000101568
Ensembl Acc Id: ENSRNOP00000105201   ⟸   ENSRNOT00000158674

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AYS0-F1-model_v2 AlphaFold Q6AYS0 1-201 view protein structure

Transcriptome

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

Promoters
RGD ID:13697987
Promoter ID:EPDNEW_R8511
Type:multiple initiation site
Name:Sectm1a_1
Description:secreted and transmembrane 1A
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_6.010110,274,761 - 110,274,821EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305973 AgrOrtholog
BioCyc Gene G2FUF-22372 BioCyc
Ensembl Genes ENSRNOG00000036672 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000054931 ENTREZGENE
  ENSRNOT00000054931.4 UniProtKB/TrEMBL
  ENSRNOT00000101568.2 UniProtKB/TrEMBL
  ENSRNOT00000106292 ENTREZGENE
  ENSRNOT00000106292.2 UniProtKB/TrEMBL
  ENSRNOT00000115371.2 UniProtKB/TrEMBL
  ENSRNOT00000158674.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7108345 IMAGE-MGC_LOAD
InterPro Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  SECTM1 UniProtKB/TrEMBL
KEGG Report rno:287885 UniProtKB/TrEMBL
MGC_CLONE MGC:93752 IMAGE-MGC_LOAD
NCBI Gene 287885 ENTREZGENE
PANTHER PTHR15123 UniProtKB/TrEMBL
  SECRETED AND TRANSMEMBRANE PROTEIN 1A UniProtKB/TrEMBL
PhenoGen Sectm1a PhenoGen
RatGTEx ENSRNOG00000036672 RatGTEx
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt A0A8I5ZTC8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AEM6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AHD3_RAT UniProtKB/TrEMBL
  A0ABK0LUE8_RAT UniProtKB/TrEMBL
  A6HLM4 ENTREZGENE, UniProtKB/TrEMBL
  Q6AYS0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-07-25 Sectm1a  secreted and transmembrane 1A  Sectm1  secreted and transmembrane 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-02-02 Sectm1  secreted and transmembrane 1  Sectm1a  secreted and transmembrane 1A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-09-25 Sectm1a  secreted and transmembrane 1A  Sectm1_predicted  secreted and transmembrane 1 (predicted)  Symbol and name updated to reflect mouse gene nomenclature 1299863 APPROVED
2005-01-12 Sectm1_predicted  secreted and transmembrane 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED