Samt3 (spermatogenesis associated multipass transmembrane protein 3) - Rat Genome Database

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Gene: Samt3 (spermatogenesis associated multipass transmembrane protein 3) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Samt3
Name: spermatogenesis associated multipass transmembrane protein 3
RGD ID: 1583524
Description: Predicted to enable structural molecule activity. Predicted to be involved in bicellular tight junction assembly and cell adhesion. Predicted to be active in bicellular tight junction and plasma membrane.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC681167; LOC681167; uncharacterized protein Samt3
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X54,522,644 - 54,525,478 (+)NCBIGRCr8
mRatBN7.2X50,571,864 - 50,574,698 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX50,571,864 - 50,574,716 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X54,553,870 - 54,556,708 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX54,553,878 - 54,556,771 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X54,757,074 - 54,759,908 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X72,818,746 - 72,820,109 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX51,108,634 - 51,111,399 (+)NCBICelera
Cytogenetic MapXq21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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.

Genomics

Variants

.
Variants in Samt3
2 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:19
Count of miRNA genes:19
Interacting mature miRNAs:19
Transcripts:ENSRNOT00000040231
Prediction methods:Miranda, Pita, 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
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1529780260297802Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat


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 7
Low 9 13 9 2 6 7
Below cutoff 2 9 17 10 5 10 8 9 8 2 1 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000040231   ⟹   ENSRNOP00000049315
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX50,571,864 - 50,574,716 (+)Ensembl
Rnor_6.0 EnsemblX54,553,878 - 54,556,771 (+)Ensembl
RefSeq Acc Id: NM_001408874   ⟹   NP_001395803
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X54,522,644 - 54,525,478 (+)NCBI
mRatBN7.2X50,571,864 - 50,574,698 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001395803 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000049315
  ENSRNOP00000049315.3
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000049315   ⟸   ENSRNOT00000040231
RefSeq Acc Id: NP_001395803   ⟸   NM_001408874
- UniProtKB: F1M0F7 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M0F7-F1-model_v2 AlphaFold F1M0F7 1-233 view protein structure

Transcriptome

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

Promoters
RGD ID:13701837
Promoter ID:EPDNEW_R12357
Type:single initiation site
Name:Samt3_1
Description:spermatogenesis associated multipass transmembrane protein 3
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_6.0X54,553,868 - 54,553,928EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583524 AgrOrtholog
BioCyc Gene G2FUF-2341 BioCyc
Ensembl Genes ENSRNOG00000029010 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000040231 ENTREZGENE
  ENSRNOT00000040231.5 UniProtKB/TrEMBL
Gene3D-CATH 1.20.140.150 UniProtKB/TrEMBL
InterPro Claudin UniProtKB/TrEMBL
KEGG Report rno:681167 UniProtKB/TrEMBL
NCBI Gene 681167 ENTREZGENE
PANTHER PTHR12002 UniProtKB/TrEMBL
  SPERMATOGENESIS-ASSOCIATED MULTIPASS TRANSMEMBRANE PROTEIN 3 UniProtKB/TrEMBL
PhenoGen Samt3 PhenoGen
RatGTEx ENSRNOG00000029010 RatGTEx
UniProt F1M0F7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-09-26 Samt3  spermatogenesis associated multipass transmembrane protein 3  LOC681167  hypothetical protein LOC681167  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC681167  hypothetical protein LOC681167  LOC682446  hypothetical protein LOC682446  Data merged from RGD:1583446 1643240 APPROVED
2006-11-19 LOC681167  hypothetical protein LOC681167      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC682446  hypothetical protein LOC682446      Symbol and Name status set to provisional 70820 PROVISIONAL