Ssna1 (SS nuclear autoantigen 1) - Rat Genome Database

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Gene: Ssna1 (SS nuclear autoantigen 1) Mus musculus
Analyze
Symbol: Ssna1
Name: SS nuclear autoantigen 1
RGD ID: 1617539
MGI Page MGI
Description: Enables identical protein binding activity. Involved in axon extension. Acts upstream of or within intraciliary transport and receptor clustering. Located in axon; microtubule organizing center; and plasma membrane. Orthologous to human SSNA1 (SS nuclear autoantigen 1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1110003H09Rik; 1190004J23Rik; AA934184; microtubule nucleation factor SSNA1; N1; N14; NA; NA14; Sjoegren syndrome nuclear autoantigen 1 homolog; Sjogren's syndrome nuclear autoantigen 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,161,051 - 25,162,430 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,161,051 - 25,162,450 (-)EnsemblGRCm39 Ensembl
GRCm38225,271,039 - 25,272,418 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,271,039 - 25,272,438 (-)EnsemblGRCm38mm10GRCm38
MGSCv37225,126,559 - 25,127,938 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36225,087,542 - 25,094,421 (-)NCBIMGSCv36mm8
Celera224,998,730 - 25,000,109 (-)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
axon  (IDA)
axoneme  (ISO)
cell projection  (IEA)
centriole  (ISO)
centrosome  (IBA,IDA,ISO)
ciliary basal body  (IBA,IDA,ISO)
cilium  (IEA)
cytoplasm  (IEA)
cytoskeleton  (IEA)
midbody  (ISO)
motile cilium  (IEA)
nucleus  (IEA)
supramolecular fiber  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11591653   PMID:12466851   PMID:12477932   PMID:14610273   PMID:15102471   PMID:15269182   PMID:15489334  
PMID:15782199   PMID:16141072   PMID:16141073   PMID:18459117   PMID:21267068   PMID:21289087   PMID:21677750   PMID:21873635   PMID:26496610   PMID:30250060  


Genomics

Comparative Map Data
Ssna1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,161,051 - 25,162,430 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,161,051 - 25,162,450 (-)EnsemblGRCm39 Ensembl
GRCm38225,271,039 - 25,272,418 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,271,039 - 25,272,438 (-)EnsemblGRCm38mm10GRCm38
MGSCv37225,126,559 - 25,127,938 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36225,087,542 - 25,094,421 (-)NCBIMGSCv36mm8
Celera224,998,730 - 25,000,109 (-)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.12NCBI
SSNA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389137,188,676 - 137,190,366 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9137,188,660 - 137,190,370 (+)EnsemblGRCh38hg38GRCh38
GRCh379140,083,128 - 140,084,818 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369139,202,954 - 139,204,639 (+)NCBINCBI36Build 36hg18NCBI36
Build 349137,358,969 - 137,360,652NCBI
Celera9110,597,085 - 110,598,853 (+)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9109,543,071 - 109,544,839 (+)NCBIHuRef
CHM1_19140,231,743 - 140,233,511 (+)NCBICHM1_1
T2T-CHM13v2.09149,426,339 - 149,428,029 (+)NCBIT2T-CHM13v2.0
Ssna1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8328,483,107 - 28,484,571 (-)NCBIGRCr8
mRatBN7.238,084,949 - 8,086,417 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,084,974 - 8,086,356 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx311,189,448 - 11,190,912 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0319,775,678 - 19,777,142 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0317,965,521 - 17,966,985 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,489,017 - 2,490,481 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,489,042 - 2,490,392 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.032,470,451 - 2,471,889 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.433,435,747 - 3,436,469 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.133,435,392 - 3,436,283 (-)NCBI
Celera32,911,494 - 2,912,958 (-)NCBICelera
Cytogenetic Map3p13NCBI
Ssna1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555135,194,308 - 5,195,721 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555135,194,308 - 5,195,721 (+)NCBIChiLan1.0ChiLan1.0
SSNA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan192,211,584 - 2,213,367 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09108,248,263 - 108,250,002 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19137,217,653 - 137,219,406 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9137,217,653 - 137,219,406 (+)Ensemblpanpan1.1panPan2
SSNA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1948,474,132 - 48,475,731 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl948,474,139 - 48,475,691 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha947,664,954 - 47,666,564 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0949,339,809 - 49,341,406 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl949,339,811 - 49,341,350 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1948,116,208 - 48,117,818 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0948,415,021 - 48,416,631 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0948,462,180 - 48,463,790 (-)NCBIUU_Cfam_GSD_1.0
Ssna1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947202,577,630 - 202,579,125 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936669795,950 - 797,422 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936669795,929 - 797,422 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SSNA1
(Sus scrofa - pig)		 No map positions available.
SSNA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.112999,142 - 1,000,877 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl12999,327 - 1,000,831 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660584,304,376 - 4,306,111 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ssna1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624760759,469 - 760,797 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624760759,471 - 760,797 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ssna1
39 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:526
Count of miRNA genes:314
Interacting mature miRNAs:350
Transcripts:ENSMUST00000028342, ENSMUST00000127176, ENSMUST00000133697, ENSMUST00000141470
Prediction methods: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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4141836Tgq11_mtriglyceride QTL 11 (mouse)Not determined125324559Mouse
4142333Tgq10_mtriglyceride QTL 10 (mouse)Not determined125324559Mouse
1301838Sluc16_msusceptibility to lung cancer 16 (mouse)Not determined2126529589Mouse
12904743Carcdq3_mcardiac collagen deposition QTL 3 (mouse)2323494028179150Mouse
1301769Orgwq2_morgan weight QTL 2 (mouse)Not determined2388712693421651Mouse
1301980Fcsa5_mfemoral cross-sectional area 5 (mouse)Not determined2767911541679261Mouse
1301790Pcfm1_mperiosteal circumference and femur length 1 (mouse)Not determined2823629642236396Mouse
10043876Adip22_madiposity 22 (mouse)Not determined2830805142308240Mouse
1300624Insq7_minsulin QTL 7 (mouse)Not determined2938444643384575Mouse
10755513Amzn4_manatomical modifier of Zfp423 4 (mouse)2938444643384575Mouse
12903993Opfaq1_mopen field activity QTL 1 (mouse)2967669127022642Mouse
8552707Cia23_mcollagen induced arthritis QTL 23 (mouse)Not determined21212953766556453Mouse
1301641Sbmd2_mspinal bone mineral density 2 (mouse)Not determined21421456748214713Mouse
1357881Estoq1_membryo survival total QTL 1 (mouse)Not determined220897778118894840Mouse
1357454Kidq1_mkidney weight QTL 1 (mouse)Not determined220897778118894840Mouse
1357436Splq1_mspleen weight QTL 1 (mouse)Not determined220897778118894840Mouse
39128209Lwq14_mliver weight QTL 14 (mouse)220897778118894840Mouse
1558899Egq1_mearly growth QTL 1 (mouse)Not determined220897778118894840Mouse
1558966W10q9_mweight 10 weeks QTL 9 (mouse)Not determined220897778118894840Mouse
1558915W3q1_mweight 3 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
1558738W6q1_mweight 6 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
1357681Hrtq1_mheart weight QTL 1 (mouse)Not determined220897778118894840Mouse
1301376Etohc1_methanol consumption 1 (mouse)Not determined22112972555129871Mouse
4141708Pbwg1.2_mpostnatal body weight growth 1.2 (mouse)Not determined2112972555129871Mouse
13463470Tubisq1_mtubulointerstitial injury severity, QTL 1 (mouse)22368914557689269Mouse
1302174Dssc2_mdextran sodium sulfate induced colitis QTL2 (mouse)Not determined224224632148700377Mouse
26884438Sklq12_mskull length QTL 12, 16 week (mouse)22459001254890012Mouse
8552705Cia25_mcollagen induced arthritis 25 (mouse)Not determined22467911533523172Mouse
8552706Cia24_mcollagen induced arthritis QTL 24 (mouse)Not determined22467911533523172Mouse
12792980Fbmd1_mfemoral bone mineral density 1, females only (mouse)22503449245034492Mouse

Markers in Region
AA934184  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38225,271,186 - 25,271,311UniSTSGRCm38
MGSCv37225,126,706 - 25,126,831UniSTSGRCm37
Celera224,998,877 - 24,999,002UniSTS
Cytogenetic Map2A3UniSTS
Whitehead/MRC_RH21886.25UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000028342   ⟹   ENSMUSP00000028342
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl225,161,051 - 25,162,428 (-)Ensembl
GRCm38.p6 Ensembl225,271,039 - 25,272,416 (-)Ensembl
RefSeq Acc Id: ENSMUST00000127176
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl225,161,718 - 25,162,416 (-)Ensembl
GRCm38.p6 Ensembl225,271,706 - 25,272,404 (-)Ensembl
RefSeq Acc Id: ENSMUST00000133697
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl225,161,051 - 25,162,422 (-)Ensembl
GRCm38.p6 Ensembl225,271,039 - 25,272,410 (-)Ensembl
RefSeq Acc Id: ENSMUST00000141470
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl225,161,098 - 25,162,450 (-)Ensembl
GRCm38.p6 Ensembl225,271,086 - 25,272,438 (-)Ensembl
RefSeq Acc Id: NM_023464   ⟹   NP_075953
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39225,161,051 - 25,162,430 (-)NCBI
GRCm38225,271,039 - 25,272,418 (-)ENTREZGENE
MGSCv37225,126,559 - 25,127,938 (-)RGD
Celera224,998,730 - 25,000,109 (-)RGD
cM Map2 ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_075953   ⟸   NM_023464
- UniProtKB: Q9JJ94 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000028342   ⟸   ENSMUST00000028342

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JJ94-F1-model_v2 AlphaFold Q9JJ94 1-119 view protein structure

Promoters
RGD ID:6832851
Promoter ID:MM_KWN:28120
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000114324,   NM_023464,   NM_175300,   OTTMUST00000028077,   OTTMUST00000028078,   OTTMUST00000028079,   OTTMUST00000028081,   OTTMUST00000028083,   UC008IRE.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36225,126,741 - 25,128,942 (-)MPROMDB
RGD ID:6876570
Promoter ID:EPDNEW_M1736
Type:initiation region
Name:Ssna1_1
Description:Mus musculus SS nuclear autoantigen 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38225,272,393 - 25,272,453EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1915725 AgrOrtholog
Ensembl Genes ENSMUSG00000026966 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000028342 ENTREZGENE
  ENSMUST00000028342.7 UniProtKB/Swiss-Prot
InterPro SSNA1_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:68475 UniProtKB/Swiss-Prot
MGD MGI:1915725 ENTREZGENE
NCBI Gene 68475 ENTREZGENE
PANTHER PTHR28661 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SJOEGREN SYNDROME NUCLEAR AUTOANTIGEN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ssna1 PhenoGen
UniProt Q78YP7_MOUSE UniProtKB/TrEMBL
  Q9JJ94 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-30 Ssna1  SS nuclear autoantigen 1    Sjogren's syndrome nuclear autoantigen 1  Symbol and/or name change 5135510 APPROVED