Spin2a (spindlin family member 2A) - Rat Genome Database

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Gene: Spin2a (spindlin family member 2A) Rattus norvegicus
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Symbol: Spin2a
Name: spindlin family member 2A
RGD ID: 1560898
Description: Predicted to enable methylated histone binding activity. Predicted to be involved in regulation of DNA-templated transcription. Predicted to be active in cytosol and nucleoplasm. Orthologous to several human genes including SPIN2A (spindlin family member 2A); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC100909485; LOC317395; MGC187640; RGD1560898; similar to Spindlin-like; Spin2; spindlin family, member 2; spindlin family, member 2A; spindlin-2; spindlin-2-like; spindlin-2C
RGD Orthologs
Human
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X20,847,871 - 20,849,854 (-)NCBIGRCr8
mRatBN7.2X17,511,018 - 17,513,001 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX17,511,022 - 17,513,001 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX14,858,054 - 14,860,037 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X25,264,893 - 25,266,876 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X17,918,561 - 17,920,544 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X17,962,905 - 17,964,888 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX17,962,909 - 17,964,888 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 EnsemblX18,340,688 - 18,341,467 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X18,730,378 - 18,732,361 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X37,609,279 - 37,610,330 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX17,758,434 - 17,760,417 (-)NCBICelera
Cytogenetic MapXq12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytosol  (IBA,ISO)
nucleoplasm  (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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:29061846  


Genomics

Comparative Map Data
Spin2a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X20,847,871 - 20,849,854 (-)NCBIGRCr8
mRatBN7.2X17,511,018 - 17,513,001 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX17,511,022 - 17,513,001 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX14,858,054 - 14,860,037 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X25,264,893 - 25,266,876 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X17,918,561 - 17,920,544 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X17,962,905 - 17,964,888 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX17,962,909 - 17,964,888 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 EnsemblX18,340,688 - 18,341,467 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X18,730,378 - 18,732,361 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X37,609,279 - 37,610,330 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX17,758,434 - 17,760,417 (-)NCBICelera
Cytogenetic MapXq12NCBI
SPIN2A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X57,134,265 - 57,147,180 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX57,134,530 - 57,137,523 (-)EnsemblGRCh38hg38GRCh38
GRCh37X57,162,083 - 57,163,830 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X57,178,808 - 57,180,783 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X57,045,104 - 57,047,079NCBI
CeleraX61,016,469 - 61,018,444 (-)NCBICelera
Cytogenetic MapXp11.21NCBI
HuRefX54,225,452 - 54,227,427 (-)NCBIHuRef
CHM1_1X57,152,222 - 57,154,197 (-)NCBICHM1_1
T2T-CHM13v2.0X56,433,139 - 56,446,055 (-)NCBIT2T-CHM13v2.0

Variants

.
Variants in Spin2a
5 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:211
Count of miRNA genes:167
Interacting mature miRNAs:182
Transcripts:ENSRNOT00000052281
Prediction methods:Microtar, Miranda, Pita
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
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X144797220991088Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X162371522646544Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat
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

Markers in Region
RH140479  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X17,511,058 - 17,511,159 (+)MAPPERmRatBN7.2
Rnor_6.0X18,340,454 - 18,340,554NCBIRnor6.0
Rnor_6.0X17,962,946 - 17,963,046NCBIRnor6.0
Rnor_5.0X19,112,171 - 19,112,271UniSTSRnor5.0
Rnor_5.0X18,730,419 - 18,730,519UniSTSRnor5.0
RGSC_v3.4X37,609,319 - 37,609,419UniSTSRGSC3.4
CeleraX17,758,475 - 17,758,575UniSTS
RH 3.4 MapX229.1UniSTS
Cytogenetic MapXq14UniSTS
AA998206  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X17,603,145 - 17,603,239 (+)MAPPERmRatBN7.2
Rnor_6.0X18,440,828 - 18,440,921NCBIRnor6.0
Rnor_5.0X19,212,204 - 19,212,297UniSTSRnor5.0
RGSC_v3.4X37,710,869 - 37,710,962UniSTSRGSC3.4
CeleraX17,858,871 - 17,858,964UniSTS
RH 3.4 MapX169.4UniSTS
Cytogenetic MapXq14UniSTS


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 4 5
Low 22 19 16 16 74 19 29 6
Below cutoff 3 16 36 25 13 25 2 3 12 6 5 2

Sequence


RefSeq Acc Id: ENSRNOT00000045802   ⟹   ENSRNOP00000064043
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX18,340,688 - 18,341,467 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000052281   ⟹   ENSRNOP00000049794
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX17,511,022 - 17,513,001 (-)Ensembl
Rnor_6.0 EnsemblX17,962,909 - 17,964,888 (-)Ensembl
RefSeq Acc Id: NM_001127657   ⟹   NP_001121129
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X20,847,871 - 20,849,854 (-)NCBI
mRatBN7.2X17,511,018 - 17,513,001 (-)NCBI
Rnor_6.0X17,962,905 - 17,964,888 (-)NCBI
Rnor_5.0X18,730,378 - 18,732,361 (-)NCBI
RGSC_v3.4X37,609,279 - 37,610,330 (-)RGD
CeleraX17,758,434 - 17,760,417 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001121129 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI58656 (Get FASTA)   NCBI Sequence Viewer  
  EDL86372 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000049794
  ENSRNOP00000049794.3
RefSeq Acc Id: NP_001121129   ⟸   NM_001127657
- UniProtKB: B0BN24 (UniProtKB/TrEMBL),   A6KL48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000049794   ⟸   ENSRNOT00000052281
RefSeq Acc Id: ENSRNOP00000064043   ⟸   ENSRNOT00000045802

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B0BN24-F1-model_v2 AlphaFold B0BN24 1-259 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560898 AgrOrtholog
BioCyc Gene G2FUF-2840 BioCyc
Ensembl Genes ENSRNOG00000031286 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000034120 Ensembl
Ensembl Transcript ENSRNOT00000052281 ENTREZGENE
  ENSRNOT00000052281.4 UniProtKB/TrEMBL
Gene3D-CATH 2.80.10.70 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8369055 IMAGE-MGC_LOAD
InterPro SPIN/Ssty_sf UniProtKB/TrEMBL
  Spin_Ssty UniProtKB/TrEMBL
KEGG Report rno:317395 UniProtKB/TrEMBL
MGC_CLONE MGC:187640 IMAGE-MGC_LOAD
NCBI Gene 317395 ENTREZGENE
PANTHER PTHR10405 UniProtKB/TrEMBL
  PTHR10405:SF32 UniProtKB/TrEMBL
Pfam Spin-Ssty UniProtKB/TrEMBL
PhenoGen Spin2a PhenoGen
RatGTEx ENSRNOG00000031286 RatGTEx
  ENSRNOG00000034120 RatGTEx
UniProt A6KL48 ENTREZGENE, UniProtKB/TrEMBL
  B0BN24 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-05-13 Spin2a  spindlin family member 2A  Spin2a  spindlin family, member 2A  Name changed 629549 APPROVED
2021-03-09 Spin2a  spindlin family, member 2A  LOC100909485  spindlin-2-like  Data merged from RGD:6503238 737654 PROVISIONAL
2012-07-05 LOC100909485  spindlin-2-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-09-18 Spin2a  spindlin family, member 2A  Spin2  spindlin family, member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-28 Spin2  spindlin family, member 2  RGD1560898_predicted  similar to Spindlin-like (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1560898_predicted  similar to Spindlin-like (predicted)  LOC317395  similar to Spindlin-like  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC317395  similar to Spindlin-like      Symbol and Name status set to provisional 70820 PROVISIONAL