Spata24 (spermatogenesis associated 24) - Rat Genome Database

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Gene: Spata24 (spermatogenesis associated 24) Mus musculus
Analyze
Symbol: Spata24
Name: spermatogenesis associated 24
RGD ID: 1323357
MGI Page MGI
Description: Enables DNA binding activity and identical protein binding activity. Predicted to be involved in cell differentiation and spermatogenesis. Located in cytoplasm and male germ cell nucleus. Is expressed in several structures, including cardiovascular system; endocrine gland; genitourinary system; hemolymphoid system gland; and liver. Orthologous to human SPATA24 (spermatogenesis associated 24).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 2700012K08Rik; 4930583E11Rik; 5133400G04Rik; AU016220; spermatogenesis-associated protein 24; TATA-binding protein-like factor-interacting protein; testis protein T6441 homolog; TI; TIP; TIPT; TIPT2; TLF-interacting protein; TRF2-interacting protein in testis
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391835,789,742 - 35,795,239 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1835,789,742 - 35,795,239 (-)EnsemblGRCm39 Ensembl
GRCm381835,656,689 - 35,662,186 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1835,656,689 - 35,662,186 (-)EnsemblGRCm38mm10GRCm38
MGSCv371835,816,343 - 35,821,840 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361835,782,664 - 35,788,160 (-)NCBIMGSCv36mm8
Celera1836,112,811 - 36,118,308 (-)NCBICelera
Cytogenetic Map18B2NCBI
cM Map1819.2NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA,IDA)
cytosol  (IEA,ISO)
male germ cell nucleus  (IDA)
nucleolus  (IEA)
nucleoplasm  (IEA,ISO)
nucleus  (IBA)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
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:10725249   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:16141072   PMID:16141073   PMID:18418073  
PMID:18799693   PMID:19515240   PMID:21565611   PMID:21677750   PMID:21873635   PMID:24194600   PMID:32588039   PMID:38355793  


Genomics

Comparative Map Data
Spata24
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391835,789,742 - 35,795,239 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1835,789,742 - 35,795,239 (-)EnsemblGRCm39 Ensembl
GRCm381835,656,689 - 35,662,186 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1835,656,689 - 35,662,186 (-)EnsemblGRCm38mm10GRCm38
MGSCv371835,816,343 - 35,821,840 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361835,782,664 - 35,788,160 (-)NCBIMGSCv36mm8
Celera1836,112,811 - 36,118,308 (-)NCBICelera
Cytogenetic Map18B2NCBI
cM Map1819.2NCBI
SPATA24
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385139,392,500 - 139,404,089 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5139,396,563 - 139,404,089 (-)EnsemblGRCh38hg38GRCh38
GRCh375138,732,456 - 138,739,778 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365138,760,355 - 138,767,652 (-)NCBINCBI36Build 36hg18NCBI36
Celera5134,852,451 - 134,859,487 (-)NCBICelera
Cytogenetic Map5q31.2NCBI
HuRef5133,922,187 - 133,929,509 (-)NCBIHuRef
CHM1_15138,165,076 - 138,172,396 (-)NCBICHM1_1
T2T-CHM13v2.05139,922,301 - 139,929,892 (-)NCBIT2T-CHM13v2.0
Spata24
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81827,523,133 - 27,531,375 (-)NCBIGRCr8
mRatBN7.21827,249,047 - 27,257,129 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1827,248,609 - 27,257,124 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1827,382,358 - 27,384,471 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01828,144,481 - 28,146,594 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01827,479,363 - 27,481,476 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01828,446,592 - 28,454,724 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1828,446,589 - 28,454,756 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01828,159,702 - 28,167,849 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41828,279,137 - 28,281,228 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11828,305,834 - 28,307,874 (-)NCBI
Celera1826,988,494 - 26,990,607 (-)NCBICelera
Cytogenetic Map18p11NCBI
Spata24
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554181,157,089 - 1,165,636 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554181,157,089 - 1,163,897 (+)NCBIChiLan1.0ChiLan1.0
SPATA24
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24134,663,654 - 134,671,089 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15132,803,206 - 132,813,799 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05134,767,828 - 134,775,171 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15140,890,255 - 140,897,927 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5140,890,610 - 140,897,927 (-)Ensemblpanpan1.1panPan2
SPATA24
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1234,719,710 - 34,724,880 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl234,719,713 - 34,724,843 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha231,822,002 - 31,827,188 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0235,173,790 - 35,178,974 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl235,173,795 - 35,178,956 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1232,226,237 - 32,231,421 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0233,092,537 - 33,097,724 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0233,844,160 - 33,849,346 (-)NCBIUU_Cfam_GSD_1.0
Spata24
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213153,121,278 - 153,127,313 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365318,483,834 - 8,490,249 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365318,484,192 - 8,490,205 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPATA24
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2141,286,880 - 141,293,227 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12141,286,870 - 141,293,232 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22147,117,481 - 147,123,861 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SPATA24
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12342,069,223 - 42,077,304 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2342,069,256 - 42,076,480 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603435,811,367 - 35,818,748 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Spata24
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474332,201,286 - 32,207,177 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474332,201,285 - 32,207,197 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Spata24
119 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:307
Count of miRNA genes:258
Interacting mature miRNAs:269
Transcripts:ENSMUST00000025209, ENSMUST00000096573
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
1558743Kcal1_mkilocalorie 1 (mouse)Not determined181901887453018992Mouse
1302163Bmd16_mbone mineral density 16 (mouse)Not determined182966791463668060Mouse
11532716Sluc41c_msusceptibility to lung cancer 41c (mouse)182261991456620127Mouse
11532715Sluc41b_msusceptibility to lung cancer 41b (mouse)182261991456620127Mouse
11532710Sluc41a_msusceptibility to lung cancer 41a (mouse)182261991456620127Mouse
25823171Hrsq10_mhost response to SARS QTL 10, D4% weight (mouse)182724111558827077Mouse
11532709Sluc41_msusceptibility to lung cancer 41 (mouse)182095369457590708Mouse
1301400Lmr13_mleishmaniasis resistance 13 (mouse)Not determined182810938062109518Mouse
25823174Hrsq11_mhost response to SARS QTL 11, log titer (mouse)182724111558827077Mouse
1300638Im7_mimmunoregulatory 7 (mouse)Not determined181901887453018992Mouse
1558873Hrtfm7_mheart failure modifier 7 (mouse)Not determined18808696442087106Mouse
25823173Hrsq12_mhost response to SARS QTL 12, hemorrhage (mouse)182489588178339555Mouse
1300994Pvcan3_mprotection against vaginal candidiasis 3 (mouse)Not determined181619964050199776Mouse
1301570Sluc14_msusceptibility to lung cancer 14 (mouse)Not determined182261991456620127Mouse
13504732Cath6_mcarotid atherosclerosis 6 (mouse)181363712647637126Mouse
1558849W3q15_mweight 3 weeks QTL 15 (mouse)Not determined18504111961272643Mouse
12880412V125Dq12_mvitamin D active form serum level QTL 12 (mouse)183023306764233067Mouse
1301771Pcyts6_mplasmacytoma susceptibility 6 (mouse)Not determined183565863269658851Mouse
1300877Adip8_madiposity 8 (mouse)Not determined182261991456620127Mouse
4141857Mhysq5_mmale hybrid sterility QTL 5 (mouse)Not determined2813060462130739Mouse
1300685Scc5_mcolon tumor susceptibility 5 (mouse)Not determined183198848065988629Mouse
1301307Phospq1_mphospholipid QTL 1 (mouse)Not determined181813970452139859Mouse
1301950Otx2m1_morthodenticle homolog 2 (Drosophila) modifier 1 (mouse)Not determined182156868236187740Mouse
1357690Vtbt19_mvertebral trabecular bone trait 19 (mouse)Not determined183309104367091221Mouse
4142031Moen1_mmodifier of engrailed QTL 1 (mouse)Not determined182411556058115730Mouse
12904950Smmq3_msoleus muscle mass QTL 3 (mouse)182605687560056875Mouse
25823167Hrsq5_mhost response to SARS QTL 5, D3% weight (mouse)182724111558827077Mouse
1357603Mom3_mmodifier of Min 3 (mouse)Not determined181403002367098962Mouse
13463476Hctq8_mhematocrit QTL 8 (mouse)182121758055217727Mouse
27226723Tibw9_mtibia width 9, proximal, 16 week (mouse)18320000060933072Mouse

Markers in Region
AU016220  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381835,660,229 - 35,660,316UniSTSGRCm38
MGSCv371835,819,883 - 35,819,970UniSTSGRCm37
Celera1836,116,351 - 36,116,438UniSTS
Cytogenetic Map18B3UniSTS
5133400G04Rik  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map18B3UniSTS
cM Map18 UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000025209   ⟹   ENSMUSP00000025209
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1835,789,742 - 35,795,239 (-)Ensembl
GRCm38.p6 Ensembl1835,656,689 - 35,662,186 (-)Ensembl
Ensembl Acc Id: ENSMUST00000096573   ⟹   ENSMUSP00000094324
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1835,793,069 - 35,795,239 (-)Ensembl
GRCm38.p6 Ensembl1835,660,016 - 35,662,186 (-)Ensembl
Ensembl Acc Id: ENSMUST00000235760   ⟹   ENSMUSP00000158003
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1835,789,852 - 35,795,184 (-)Ensembl
GRCm38.p6 Ensembl1835,656,799 - 35,662,131 (-)Ensembl
Ensembl Acc Id: ENSMUST00000235803   ⟹   ENSMUSP00000157985
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1835,793,070 - 35,795,209 (-)Ensembl
GRCm38.p6 Ensembl1835,660,017 - 35,662,156 (-)Ensembl
Ensembl Acc Id: ENSMUST00000236539   ⟹   ENSMUSP00000157452
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1835,789,746 - 35,793,880 (-)Ensembl
GRCm38.p6 Ensembl1835,656,693 - 35,660,827 (-)Ensembl
Ensembl Acc Id: ENSMUST00000236574   ⟹   ENSMUSP00000157388
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1835,793,110 - 35,795,175 (-)Ensembl
GRCm38.p6 Ensembl1835,660,057 - 35,662,122 (-)Ensembl
Ensembl Acc Id: ENSMUST00000236971   ⟹   ENSMUSP00000157683
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1835,793,109 - 35,795,184 (-)Ensembl
GRCm38.p6 Ensembl1835,660,056 - 35,662,131 (-)Ensembl
RefSeq Acc Id: NM_027733   ⟹   NP_082009
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391835,793,069 - 35,795,239 (-)NCBI
GRCm381835,660,016 - 35,662,186 (-)NCBI
MGSCv371835,816,343 - 35,821,840 (-)RGD
Celera1836,112,811 - 36,118,308 (-)RGD
cM Map18 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_029485   ⟹   NP_083761
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391835,789,742 - 35,795,239 (-)NCBI
GRCm381835,656,689 - 35,662,186 (-)ENTREZGENE
MGSCv371835,816,343 - 35,821,840 (-)RGD
Celera1836,112,811 - 36,118,308 (-)RGD
cM Map18 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006526248   ⟹   XP_006526311
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391835,789,742 - 35,795,228 (-)NCBI
GRCm381835,656,689 - 35,662,171 (-)NCBI
Sequence:
RefSeq Acc Id: NP_083761   ⟸   NM_029485
- Peptide Label: isoform 2
- UniProtKB: Q5MMR1 (UniProtKB/Swiss-Prot),   Q9D4P6 (UniProtKB/Swiss-Prot),   Q6P926 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_082009   ⟸   NM_027733
- Peptide Label: isoform 1
- UniProtKB: A0A494B8X0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006526311   ⟸   XM_006526248
- Peptide Label: isoform X1
- UniProtKB: A0A494B928 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000157683   ⟸   ENSMUST00000236971
Ensembl Acc Id: ENSMUSP00000157388   ⟸   ENSMUST00000236574
Ensembl Acc Id: ENSMUSP00000157452   ⟸   ENSMUST00000236539
Ensembl Acc Id: ENSMUSP00000158003   ⟸   ENSMUST00000235760
Ensembl Acc Id: ENSMUSP00000157985   ⟸   ENSMUST00000235803
Ensembl Acc Id: ENSMUSP00000025209   ⟸   ENSMUST00000025209
Ensembl Acc Id: ENSMUSP00000094324   ⟸   ENSMUST00000096573

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6P926-F1-model_v2 AlphaFold Q6P926 1-205 view protein structure

Promoters
RGD ID:13677428
Promoter ID:EPDNEW_M22864
Type:initiation region
Name:Spata24_1
Description:Mus musculus spermatogenesis associated 24 , transcript variant1, 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
GRCm381835,662,157 - 35,662,217EPDNEW
RGD ID:6828989
Promoter ID:MM_KWN:24934
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   ES_Cell,   Lung,   MEF_B6
Transcripts:NM_027733,   NM_029485,   UC008EMP.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361835,821,499 - 35,821,999 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1918492 AgrOrtholog
Ensembl Genes ENSMUSG00000024352 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000025209 ENTREZGENE
  ENSMUST00000025209.12 UniProtKB/Swiss-Prot
  ENSMUST00000096573 ENTREZGENE
  ENSMUST00000096573.4 UniProtKB/Swiss-Prot
  ENSMUST00000235760.2 UniProtKB/TrEMBL
  ENSMUST00000235803.2 UniProtKB/TrEMBL
  ENSMUST00000236539 ENTREZGENE
  ENSMUST00000236539.2 UniProtKB/TrEMBL
  ENSMUST00000236574.2 UniProtKB/TrEMBL
  ENSMUST00000236971.2 UniProtKB/TrEMBL
InterPro SPATA24 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:71242 UniProtKB/Swiss-Prot
MGD MGI:1918492 ENTREZGENE
NCBI Gene 71242 ENTREZGENE
PANTHER PTHR35155 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SPERMATOGENESIS-ASSOCIATED PROTEIN 24 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SPATA24 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Spata24 PhenoGen
UniProt A0A494B8X0 ENTREZGENE, UniProtKB/TrEMBL
  A0A494B928 ENTREZGENE, UniProtKB/TrEMBL
  A0A494B9K0_MOUSE UniProtKB/TrEMBL
  A0A494BA86_MOUSE UniProtKB/TrEMBL
  A0A494BAA1_MOUSE UniProtKB/TrEMBL
  Q5MMR1 ENTREZGENE
  Q6P926 ENTREZGENE
  Q9D4P6 ENTREZGENE
  SPA24_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q5MMR1 UniProtKB/Swiss-Prot
  Q9D4P6 UniProtKB/Swiss-Prot