SPATA21 (spermatogenesis associated 21)

Gene: SPATA21 (spermatogenesis associated 21) Sus scrofa

Analyze

Symbol:

SPATA21

Name:

spermatogenesis associated 21 (Ensembl:spermatosis associated 21)

RGD ID:

14069324

Description:

ENCODES a protein that exhibits calcium ion binding (inferred); metal ion binding (inferred); ASSOCIATED WITH chromosome 1p36 deletion syndrome (ortholog); genetic disease (ortholog); Liver Neoplasms (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

spermatogenesis-associated protein 21

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

Sscrofa11.1 - Pig Sscrofa11.1 Assembly

Position:

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	75,485,870 - 75,513,996 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	75,485,728 - 75,527,175 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	69,801,019 - 69,836,722 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

chromosome 1p36 deletion syndrome (ISO)

genetic disease (ISO)

Liver Neoplasms (ISO)

polycystic ovary syndrome (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Molecular Function

calcium ion binding (IEA)

metal ion binding (IEA)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

SPATA21
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	75,485,870 - 75,513,996 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	75,485,728 - 75,527,175 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	69,801,019 - 69,836,722 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SPATA21
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	16,395,677 - 16,437,842 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	16,387,117 - 16,437,424 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	16,722,172 - 16,763,919 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	16,597,725 - 16,636,506 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	1	15,205,065 - 15,243,856 (-)	NCBI		Celera
Cytogenetic Map	1	p36.13	NCBI
HuRef	1	15,242,519 - 15,281,244 (-)	NCBI		HuRef
CHM1_1	1	16,523,811 - 16,562,714 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	1	15,837,210 - 15,879,521 (-)	NCBI		T2T-CHM13v2.0

Spata21
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	140,815,631 - 140,840,071 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	140,815,644 - 140,840,071 (+)	Ensembl		GRCm39 Ensembl
GRCm38	4	141,088,320 - 141,112,760 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	141,088,333 - 141,112,760 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	140,644,260 - 140,668,674 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	140,360,421 - 140,384,835 (+)	NCBI		MGSCv36	mm8
Celera	4	142,892,188 - 142,919,321 (+)	NCBI		Celera
Cytogenetic Map	4	D3	NCBI
cM Map	4	73.36	NCBI

Spata21
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	158,676,224 - 158,701,567 (+)	NCBI		GRCr8
mRatBN7.2	5	153,393,309 - 153,419,430 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	153,393,365 - 153,418,561 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	156,081,584 - 156,107,245 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	157,854,856 - 157,880,519 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	157,844,043 - 157,869,703 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	159,612,541 - 159,638,073 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	159,612,762 - 159,638,076 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	163,325,257 - 163,350,448 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	159,947,710 - 159,972,904 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	159,957,897 - 159,983,092 (+)	NCBI
Celera	5	151,757,889 - 151,782,954 (+)	NCBI		Celera
Cytogenetic Map	5	q36	NCBI

Spata21
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0	NW_004955527	1,903,607 - 1,939,020 (+)	NCBI	ChiLan1.0	ChiLan1.0

SPATA21
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	1	210,487,771 - 210,522,277 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	209,736,458 - 209,770,906 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	15,536,161 - 15,548,414 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	16,525,902 - 16,565,118 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	16,526,024 - 16,558,937 (-)	Ensembl	panpan1.1		panPan2

SPATA21
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	2	81,294,837 - 81,324,509 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	2	81,296,685 - 81,324,468 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	2	77,830,907 - 77,860,793 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	2	81,940,701 - 81,970,640 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	2	81,940,148 - 81,970,599 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	2	78,693,696 - 78,723,598 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	2	79,710,580 - 79,740,464 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	2	80,778,706 - 80,808,592 (+)	NCBI		UU_Cfam_GSD_1.0

Spata21
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405058	38,027,224 - 38,050,496 (-)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936474	3,852,003 - 3,875,204 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SPATA21
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	20	115,889,975 - 115,933,026 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	20	115,891,903 - 115,929,898 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666054	19,391,028 - 19,411,158 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Spata21
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624764	2,500,335 - 2,533,705 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in SPATA21
1222 total Variants

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	hemolymphoid system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system
High
Medium
Low	5	1	3	3		4	1	1
Below cutoff	5	2		2	1	13	1	1	3

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_021097598	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000044	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GFLN01132530	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSSCT00000003862 ⟹ ENSSSCP00000003774

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	6	75,484,988 - 75,523,831 (-)	Ensembl

RefSeq Acc Id:

XM_021097598 ⟹ XP_020953257

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	6	75,485,728 - 75,527,175 (-)	NCBI

Sequence:

show sequence

ATGACCCGCCTCGGGCTAGAGAGGCAGTTCGTGCACCTCAGCGGTTCGTCGCCCGCGCGCCCTC
TGCTGGAGGCCCTGGCTCAAGACATGCGGCGGACAGACACAGGCATCTATCACAAGAAGACAAG
GGCTGTTGTGTTTCCAGATGCTGAAGGGATGGGCAGTGGGAAAGAGCCCTCATCTGCCCCAGGA
GAGCCAGAGAACGGGCCCAGATGCAGAGAAGCATCAGAGCAGGGCTCCCTGGAGCTCGGCACCC
AGGAGCAGAGGCAGCCAGCAGGACCAAGGATGAAGCAGTCATCTGGGGCCCCCCAGGAAGGGCC
CTGGGAGCTGCAAGCTGGCCAGGATCAGGCCGTGCCAGGAAGTGAGCTGGGGGTGCCACCTTCC
ACAGTCCCTGTGGCACAAGAAGGGCTTCAGCAGCAGGGTTCGGGGAAGGAGTCTGAGGACCAGC
AGGGGAGCCAGCAGAACCCAGGGACAGTGGAGGGCCAGGCCCCCAAGAGCTGCCAGGATGCAGG
AGAGACATGGGCCACCCCAGGGGCCCAGAGAGGAAGGGGGCAGGGTAAGGATCCCCCACAGAGC
GGGTGGCAGGGAGAAGCCTTGTGGGACAACCTGGCTATCTGGAGTCCTCCCGAATCCCCTCCCC
AACCCTGTCCCCAGGAGGTGAAGGACCTTGGAGAGAGGAGGGAGCCAGACCATAGCCTGAAGCT
GCTTCAGGAGCCCATGGTGGCTGCAGGGGCCCAGAACCTTGGCAAGCCCCGGCCCGGCTTCATG
AAGTGCCTGCTGGAGGTGGAGGAGGAGGAAGCCACCCATCGGAGAGCCACCAAGGCCCGCGCCC
TGCCAAACCGGAAGTCCCCCAGGACTCTCCCTCCCGTGCCCAATTCCCCCCCAGCTGACAGCTC
AGCCCCAAGCCTGCCTCTGACCCTGCCTCAGACCTCTGCCTCAGCCCCTGCTGTGGCCCCATCC
CGGGCCCGGCCACCAGCCCCTGGGCCAGTCCCTGGGCCAGTCCCTGTCCCCATGGGAGTCCCCA
TCACGGCCCTGCCTGTCCCCATGTCAGACCTGGGCTGGAGAAGGACAGAACTTTTGCACCACGG
CAGGGAAAGGAGCCTCGACTACCCCAAGGCACGGCAGGAGCTGGAAGAGCACTGCCTCCAGAAG
GTGTGTCAGACCTGGGAGGAGAGGTCGGAGGAGGAGAACCTCACGCTGCAGCAAGAGGAAGCCT
TCCGCAGCTACTTTGAGATCTTCAATGGTCCTGGTGAGGTGGACGCACAGAGCCTGGAGAACAT
CCTGGTCCTCGTGGGCATCTCCCTGACACCGGCCCAGATGGACGATGCCCTGATGAGCGCTGAT
ATCGATGGAGACGGTCACGTGAACTTCAAAGACTTCTTGGCTGTGATGACAGACACCAAGCGCT
TCTTCTGCTCTATGGAACAGAATGCCCTGATGGACATGGCTCCCCCAAACCCCCACACTCTGCT
GTTTGAGATCCTGTCCCTGCTGGTGGAGATGCTGGCTTTACCTGAGGCAGCCTTAGAGGAGATC
ACGAGCTATTACCAGAAGAAGCTGAAGGAGGGCACCGGTAAGTCCCGAAAGATGGAATCAGCCA
CAGGCCGGCTGCGGTCCCGGAAGAAGCTCTCCTATAACCCCCAGCAGGCAGACGTCTTGGAAGT
CCCTGAGCGAAGAGTCCTCAGGATCCTGAGCCGGCTGAAGCAGCAGAACTTTGCTGCCAACCTG
CAAAGCCCCTATGCTCAGGTGCCTTGCATCCCGCTCTGCCCGCAGCTGGATAAGAGGGTGATCC
GACGGAAGCAGGGCAGCCACTACCTACTGGACCAGTGCACTCCTACCAGCCTGGGCCCTGACAT
CCATAGCTTCTTCTTCCAGACTGGATCTCAAGGAGGCAGGGAACTCAGCTGTGACAGCAGAAAG
TGGCTCAATTCTGTGCCGGCTCCAACCCACTGACCCTGCGGAACCTTGACTCTGGGCAGCTGCT
CAGGGCCTGCAGACGGATGGGTCACCAGGCAGGGACCGCTGCTGGGTTTTGCTTTTGTGGCCTG
GTAAGCCAATAAACAACTAACCTCAGCCTCTGTGCCTGGTGCCAGGGAGGCCCCAGGTTTTCAC
ACTTCCACTCAGCTCTTAGAGTGCAGGGCCACAGCCTCCCTCAGGCTTTGGAGCCCCTGAAGCA
AGACTCATCTTAAGACTCTGCTCAGGGTCAGGGTCCTG

hide sequence

Protein Sequences


Protein RefSeqs	XP_020953257	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSSCP00000003774.5

RefSeq Acc Id:

XP_020953257 ⟸ XM_021097598

- UniProtKB:

F1SUS3 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MTRLGLERQFVHLSGSSPARPLLEALAQDMRRTDTGIYHKKTRAVVFPDAEGMGSGKEPSSAPG
EPENGPRCREASEQGSLELGTQEQRQPAGPRMKQSSGAPQEGPWELQAGQDQAVPGSELGVPPS
TVPVAQEGLQQQGSGKESEDQQGSQQNPGTVEGQAPKSCQDAGETWATPGAQRGRGQGKDPPQS
GWQGEALWDNLAIWSPPESPPQPCPQEVKDLGERREPDHSLKLLQEPMVAAGAQNLGKPRPGFM
KCLLEVEEEEATHRRATKARALPNRKSPRTLPPVPNSPPADSSAPSLPLTLPQTSASAPAVAPS
RARPPAPGPVPGPVPVPMGVPITALPVPMSDLGWRRTELLHHGRERSLDYPKARQELEEHCLQK
VCQTWEERSEEENLTLQQEEAFRSYFEIFNGPGEVDAQSLENILVLVGISLTPAQMDDALMSAD
IDGDGHVNFKDFLAVMTDTKRFFCSMEQNALMDMAPPNPHTLLFEILSLLVEMLALPEAALEEI
TSYYQKKLKEGTGKSRKMESATGRLRSRKKLSYNPQQADVLEVPERRVLRILSRLKQQNFAANL
QSPYAQVPCIPLCPQLDKRVIRRKQGSHYLLDQCTPTSLGPDIHSFFFQTGSQGGRELSCDSRK
WLNSVPAPTH

hide sequence

RefSeq Acc Id:

ENSSSCP00000003774 ⟸ ENSSSCT00000003862

Protein Domains

EF-hand

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000003476	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000003862.5	UniProtKB/TrEMBL
Gene3D-CATH	EF-hand	UniProtKB/TrEMBL
InterPro	EF-hand-dom_pair	UniProtKB/TrEMBL
	EF_Hand_1_Ca_BS	UniProtKB/TrEMBL
	EF_hand_dom	UniProtKB/TrEMBL
	SPT21/EFCAB3	UniProtKB/TrEMBL
NCBI Gene	SPATA21	ENTREZGENE
PANTHER	PTHR47500	UniProtKB/TrEMBL
	SPERMATOGENESIS-ASSOCIATED PROTEIN 21	UniProtKB/TrEMBL
PROSITE	EF_HAND_1	UniProtKB/TrEMBL
	EF_HAND_2	UniProtKB/TrEMBL
SMART	EFh	UniProtKB/TrEMBL
Superfamily-SCOP	SSF47473	UniProtKB/TrEMBL
UniProt	F1SUS3	ENTREZGENE, UniProtKB/TrEMBL
VGNC ID	VGNC:98620	ENTREZGENE

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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