Spag6 (sperm associated antigen 6) - Rat Genome Database

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Gene: Spag6 (sperm associated antigen 6) Rattus norvegicus
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Symbol: Spag6
Name: sperm associated antigen 6
RGD ID: 1305616
Description: Predicted to enable microtubule binding activity. Predicted to be involved in epithelial cilium movement involved in extracellular fluid movement and plasma membrane bounded cell projection organization. Predicted to be located in several cellular components, including extracellular region; microtubule; and motile cilium. Predicted to be active in acrosomal vesicle; cytoskeleton; and sperm principal piece. Orthologous to human SPAG6 (sperm associated antigen 6); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC291340; Spag6l; sperm associated antigen 6-like; sperm-associated antigen 6
RGD Orthologs
Human
Mouse
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81786,258,418 - 86,309,922 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1786,262,000 - 86,309,909 (+)EnsemblGRCr8
mRatBN7.21781,352,372 - 81,401,504 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1781,349,084 - 81,401,501 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1784,826,849 - 84,874,690 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01788,662,249 - 88,710,086 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01782,678,991 - 82,726,823 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01785,382,314 - 85,437,976 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1785,382,116 - 85,437,975 (+)Ensemblrn6Rnor6.0
Rnor_5.01787,104,190 - 87,165,398 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41792,802,047 - 92,850,239 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1780,634,218 - 80,682,001 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

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.
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
Additional References at PubMed
PMID:10493827   PMID:21630459   PMID:30137358  


Genomics

Comparative Map Data
Spag6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81786,258,418 - 86,309,922 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1786,262,000 - 86,309,909 (+)EnsemblGRCr8
mRatBN7.21781,352,372 - 81,401,504 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1781,349,084 - 81,401,501 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1784,826,849 - 84,874,690 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01788,662,249 - 88,710,086 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01782,678,991 - 82,726,823 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01785,382,314 - 85,437,976 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1785,382,116 - 85,437,975 (+)Ensemblrn6Rnor6.0
Rnor_5.01787,104,190 - 87,165,398 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41792,802,047 - 92,850,239 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1780,634,218 - 80,682,001 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
SPAG6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381022,345,496 - 22,417,610 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1022,345,445 - 22,454,224 (+)Ensemblhg38GRCh38
GRCh371022,634,425 - 22,706,539 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361022,674,405 - 22,746,545 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341022,674,404 - 22,746,544NCBI
Celera1022,322,124 - 22,394,264 (+)NCBICelera
Cytogenetic Map10p12.2NCBI
HuRef1022,295,577 - 22,367,443 (+)NCBIHuRef
CHM1_11022,634,824 - 22,707,037 (+)NCBICHM1_1
T2T-CHM13v2.01022,364,530 - 22,436,652 (+)NCBIT2T-CHM13v2.0
Spag6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39218,698,808 - 18,754,561 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl218,698,843 - 18,755,224 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38218,694,011 - 18,749,746 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl218,694,032 - 18,750,413 (+)Ensemblmm10GRCm38
MGSCv37218,620,649 - 18,671,232 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36218,616,755 - 18,667,396 (+)NCBIMGSCv36mm8
Celera218,590,932 - 18,641,824 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map212.9NCBI
Spag6
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1145,287,303 - 5,327,854 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Spag6
241 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:80
Count of miRNA genes:71
Interacting mature miRNAs:77
Transcripts:ENSRNOT00000002513, ENSRNOT00000022328
Prediction methods:Microtar, Miranda, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300131Bp193Blood pressure QTL 1933.3arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)176855004093515804Rat
12904736Cm121Cardiac mass QTL 1210.043heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)174238816487388164Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)174238816487388164Rat
1300148Bp192Blood pressure QTL 1923.47arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)174605012691050126Rat
1354588Bvd4Brain ventricular dilatation QTL 45.310.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)175819406487388164Rat
61466Niddm12Non-insulin dependent diabetes mellitus QTL 123.20.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)176515487293515804Rat
4889894Eae33Experimental allergic encephalomyelitis QTL 335.20.0001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)175560459793006569Rat
2317038Ginf3Gastrointestinal inflammation QTL 32.890.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)175482950393515804Rat
2324621Coatc5Coat color QTL 5coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)174265489587654895Rat
2302365Gluco40Glucose level QTL 404.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)176456982086954580Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174096801789341781Rat


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 9 27 115 39 39 9 31 9 6 154 86 10 93 36 85 30 3 3

Sequence


Ensembl Acc Id: ENSRNOT00000002513   ⟹   ENSRNOP00000002513
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1786,262,000 - 86,309,909 (+)Ensembl
mRatBN7.2 Ensembl1781,349,084 - 81,401,501 (+)Ensembl
Rnor_6.0 Ensembl1785,382,116 - 85,437,975 (+)Ensembl
RefSeq Acc Id: NM_001106125   ⟹   NP_001099595
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81786,262,075 - 86,309,915 (+)NCBI
mRatBN7.21781,353,656 - 81,401,501 (+)NCBI
Rnor_6.01785,382,314 - 85,437,976 (+)NCBI
Rnor_5.01787,104,190 - 87,165,398 (+)NCBI
RGSC_v3.41792,802,047 - 92,850,239 (+)RGD
Celera1780,634,218 - 80,682,001 (+)RGD
Sequence:
RefSeq Acc Id: XM_039095562   ⟹   XP_038951490
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81786,258,418 - 86,309,922 (+)NCBI
mRatBN7.21781,352,372 - 81,401,504 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001099595 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951490 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL78773 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000002513
  ENSRNOP00000002513.7
RefSeq Acc Id: NP_001099595   ⟸   NM_001106125
- UniProtKB: G3V682 (UniProtKB/TrEMBL),   A6JM96 (UniProtKB/TrEMBL),   A6JSP6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000002513   ⟸   ENSRNOT00000002513
RefSeq Acc Id: XP_038951490   ⟸   XM_039095562
- Peptide Label: isoform X1
- UniProtKB: G3V682 (UniProtKB/TrEMBL),   A6JM96 (UniProtKB/TrEMBL),   A6JSP6 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V682-F1-model_v2 AlphaFold G3V682 1-509 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:1305616 AgrOrtholog
BioCyc Gene G2FUF-8557 BioCyc
Ensembl Genes ENSRNOG00000022021 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002513 ENTREZGENE
  ENSRNOT00000002513.9 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  Armadillo UniProtKB/TrEMBL
  HEAT UniProtKB/TrEMBL
KEGG Report rno:291340 UniProtKB/TrEMBL
NCBI Gene 291340 ENTREZGENE
PANTHER SPERM-ASSOCIATED ANTIGEN 6 UniProtKB/TrEMBL
  SPERM-ASSOCIATED ANTIGEN 6 UniProtKB/TrEMBL
  SPERM-ASSOCIATED ANTIGEN 6 ARMADILLO REPEAT-CONTAINING UniProtKB/TrEMBL
Pfam Arm UniProtKB/TrEMBL
  HEAT UniProtKB/TrEMBL
PhenoGen Spag6 PhenoGen
RatGTEx ENSRNOG00000022021 RatGTEx
SMART ARM UniProtKB/TrEMBL
Superfamily-SCOP ARM-type_fold UniProtKB/TrEMBL
UniProt A6JM96 ENTREZGENE, UniProtKB/TrEMBL
  A6JSP6 ENTREZGENE, UniProtKB/TrEMBL
  G3V682 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-13 Spag6  sperm associated antigen 6  Spagl  sperm associated antigen 6 -like  Name and Symbol changed 629549 APPROVED
2016-06-13 Spagl  sperm associated antigen 6 -like  Spag6l  sperm associated antigen 6-like  Name and Symbol changed 629549 APPROVED
2008-04-30 Spag6l  sperm associated antigen 6-like  Spag6_predicted  sperm associated antigen 6 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Spag6_predicted  sperm associated antigen 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED