Sptssa (serine palmitoyltransferase small subunit A)

Gene: Sptssa (serine palmitoyltransferase small subunit A) Chinchilla lanigera

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Symbol:

Sptssa

Name:

serine palmitoyltransferase small subunit A

RGD ID:

8877060

Description:

ENCODES a protein that exhibits serine C-palmitoyltransferase activity (ortholog); INVOLVED IN ceramide biosynthetic process (ortholog); protein localization (ortholog); sphingosine biosynthetic process (ortholog); ASSOCIATED WITH Brain-Lung-Thyroid Syndrome (ortholog); genetic disease (ortholog); hereditary spastic paraplegia 90A (ortholog); FOUND IN endoplasmic reticulum (ortholog); serine C-palmitoyltransferase complex (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

serine palmitoyltransferase, small subunit A

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

NCBI Annotation Information:

Annotation category: partial on reference assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0	NW_004955409	26,460,208 - 26,460,854 (+)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Brain-Lung-Thyroid Syndrome (ISO)

genetic disease (ISO)

hereditary spastic paraplegia 90A (ISO)

hereditary spastic paraplegia 90B (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

ceramide biosynthetic process (ISO)

protein localization (ISO)

sphingosine biosynthetic process (ISO)

Cellular Component

endoplasmic reticulum (ISO)

serine C-palmitoyltransferase complex (ISO)

Molecular Function

protein binding (ISO)

serine C-palmitoyltransferase activity (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

Sptssa
(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_004955409	26,460,208 - 26,460,854 (+)	NCBI	ChiLan1.0	ChiLan1.0

SPTSSA
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	14	34,432,788 - 34,462,240 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	14	34,432,788 - 34,462,240 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	14	34,901,994 - 34,931,446 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	14	33,971,895 - 34,001,219 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	14	33,971,904 - 34,001,313	NCBI
Celera	14	14,767,183 - 14,796,506 (-)	NCBI		Celera
Cytogenetic Map	14	q13.1	NCBI
HuRef	14	15,020,179 - 15,049,457 (-)	NCBI		HuRef
CHM1_1	14	34,900,608 - 34,930,130 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	14	28,631,319 - 28,661,012 (-)	NCBI		T2T-CHM13v2.0

Sptssa
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	54,692,159 - 54,703,357 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	54,692,177 - 54,703,358 (-)	Ensembl		GRCm39 Ensembl
GRCm38	12	54,645,374 - 54,656,572 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	54,645,392 - 54,656,573 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	55,746,361 - 55,757,559 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	12	55,567,018 - 55,578,124 (-)	NCBI		MGSCv36	mm8
Celera	12	55,961,951 - 55,973,156 (-)	NCBI		Celera
Cytogenetic Map	12	C1	NCBI
cM Map	12	23.46	NCBI

Sptssa
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	77,879,931 - 77,891,344 (-)	NCBI		GRCr8
mRatBN7.2	6	72,144,714 - 72,156,130 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	72,144,714 - 72,156,214 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	72,565,588 - 72,577,037 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	72,872,259 - 72,883,710 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	72,302,687 - 72,314,091 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	75,540,132 - 75,551,545 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	75,540,174 - 75,551,625 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	85,080,132 - 85,091,844 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	74,962,387 - 74,973,800 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	6	70,991,533 - 71,002,947 (-)	NCBI		Celera
Cytogenetic Map	6	q23	NCBI

SPTSSA
(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	15	35,751,896 - 35,779,566 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	14	34,968,397 - 34,996,068 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	14	15,190,833 - 15,219,882 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3

LOC102151865
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	8	13,265,424 - 13,339,212 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	8	13,077,984 - 13,151,811 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	8	13,284,591 - 13,447,278 (-)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	8	12,965,994 - 13,127,949 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	8	13,049,110 - 13,211,027 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	8	13,427,103 - 13,501,270 (-)	NCBI		UU_Cfam_GSD_1.0

Sptssa
(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_024408640	45,211,157 - 45,233,059 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936494	8,716,829 - 8,739,066 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936494	8,717,821 - 8,738,923 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SPTSSA
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	65,302,858 - 65,326,728 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	65,302,887 - 65,325,877 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	70,090,613 - 70,113,604 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SPTSSA
(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	24	11,264,578 - 11,298,816 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	24	11,266,343 - 11,298,668 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666053	201,739 - 236,078 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Sptssa
(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_female_1.0 Ensembl	NW_004624838	2,206,917 - 2,231,518 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624838	2,207,003 - 2,231,838 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005376942	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01010186	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBCC01001541	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDF01085842	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_005376942 ⟹ XP_005376999

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955409	26,460,208 - 26,460,854 (+)	NCBI

Sequence:

show sequence

CGCGAGTCCCCGGGGGCGGCGGCCAATGAGCAGCGGGCGAGCGGGGCCGGGGGCGGCCGCTCGG
GAGCGCGCGGGGCTGGGCGTGCCGCGGTGACGCGCGGGGCCGGGCGGGCCAATGGGCGCGGGGT
GGCGGGCGGGCGGGCCCGGCGCCGGGGGCTCCGGACGCCTGCGGGCGGCCGGACAGACGGACGC
GAGGCCGCATCGCGGGAGGCGCTCGGCGGGGATGGCGCTGGCGCGGGCCTGGAAGCGGATGTCC
TGGTTCTACTACCAGTACCTGCTGGTCACGGCGCTCTACATGCTGGAGCCCTGGGAGCGGACGG
TGTTCAATTCCATGCTGGTTTCCGTCGTGGGCATGGCGCTGTACACTGGATATGTCTTCATACC
CCAGCACATCATGGCGATATTGCACTATTTTGAAATTGTGCAATGACCAAGATGTGATCAGGAT
CAAGAAGTTCCTTGGAGAAGATCCGCCCTACACAGTTGGAATGAGACTTCCTCGGATGTTGCAA
GAAACTACTGGATGTCAGCATAACCAACCTTATAAATACAAAGACTAACCTTCATGAGTAGAAC
AGGAAACTCATCCTGACTCATGCGTTGTGTTCTTTATTTTTAATTTTAGAAAAGGCTCTTGTAT
AGTAGTTTTTGTCTACTTTAACATTGTAGTCATTTGTACTTTGATATTAGTATTTTCTTAACCT
TTGTGACTGTTTGAATATTACGCCATGAAAGCTTTTTTTAATGTAACTTTGAGTACATTTTAAT
TGCCTTCTATTTTTAAAACCCGAAGTAATTAGTTGGGTTTTATCGTTCTTGCTATTGTATGGCA
TATACACCTGCCCGGATAAATTTCTACTCTTGACCAAAGTTTTGTAAGAAATAACAAGATTTGG
AGCAGAGGGCCAGGGAGAGAAGAGGATATTTTATTGAGAATTATTTACAAGGCCGAGGATTTAG
CTCAGTGACGCAG

hide sequence

Protein Sequences


Protein RefSeqs	XP_005376999	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_005376999 ⟸ XM_005376942
- Sequence:	show sequence MGAGWRAGGPGAGGSGRLRAAGQTDARPHRGRRSAGMALARAWKRMSWFYYQYLLVTALYMLEP WERTVFNSMLVSVVGMALYTGYVFIPQHIMAILHYFEIVQ hide sequence

Additional Information

External Database Links

Database	Acc Id	Source(s)
NCBI Gene	Sptssa	ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-08-16	Sptssa	serine palmitoyltransferase small subunit A		serine palmitoyltransferase, small subunit A	Symbol and/or name change	5135510	APPROVED

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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Imported Disease Annotations - OMIM

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - OMIM