Gene detail

Detailed information of aint_s0066.g43.t1 in Acropora intermedia

Genomic Location: sc0000066_pilon:584145...620066
NR annotation: XP_029189647.2, serine palmitoyltransferase 2-like [Acropora millepora]
Species Acropora intermedia · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

aint_s0066.g43.t1

ATGGAGCCCAGCTGTGTTTCAATCAATGTGGGGCCTATGAATCAGGTGACGAAGACGTGCGACTTAAACAATGCCACTGCTGATGGATCCCCAGGCAGCACACTAGAACAAAACATTGGATATTTGCATTTAGCAGTAGAGAATCATTGCCACAGTGACCCTTGCCGTGAGAAAAATGCACTTTGTCAAGTTGGGTTCACCGAAAAACGCTACAGATGCGTTTGCCAAGAGGGTTATCAGGGCACTCATTGCAACGAAGATGTAGATGAATGCACTCATAATTTGCACAACTGCGCACCGAACATGACATGTGTCAATGAGTATGGCTCGTTCTTCTGCAAAGTTCTCAATATGACATGGCGCAGTATAACGTGCGTAGGAAGCGATTTTGTCCGAAGGCACTTTGGGTATTGCATGGCGAAGCAACGATATCGCGGGAAACCAATAACAGTGGGAGGCCAAGCTGCGACGGGGCTGAAGAAGGGGAAAAGCACAGCTAAGgaattcactggcaacacagatgagaaCagtattgtgtttcatgacttgaatcctccaatcagggctcgttacatccgttttcgaccaacagcttggcatcagcgcatatctatgagagtggagctttacggctgttgtgattccctctcagttattgtGtgtgaAGCCGCAAAAGAAAACGTTATTTTGAAGGCAATTCTGACCAATTCTGAGAAACGTTTTACACTCACCTACGACACAATCGATTACAAGAATCCCTGCATAACAAACCCGTGTCCACACAGTTTTACCTGTCAAGTCGGATTTCGCGATCAAGGGTATCGGTGCGTCATTGCATGCAACAGATCCTTGGGTATGGAGAGTGGCAAAATATTGCATCAGCAAATCACTGCATCTTCCCAATGGAGTGCCCTTTTTGCCGCCCATCAAGGAAGACTTAACTTTCAAGAAGATATTGAGGGAGGTGTGCTAAAAAATTCAGGGTCGTGGACAGCTCTCATAAGAGATCAAAATCAATGGCTGCAGGTCGACTTGCTCCATCAAGAAATTATTACAAGTGTAGCAACGCAAGGAAGAAACAGGCATCCACTTTGGAAAACACACAACCAATGGGTGAAGAGTTACAAGTTGCAGTACAGCAACAATGGAGCCGACTTTGAATATTACAAGGATGAAAGACAAAACTCAGCTAAGgtatttgctggaaacaatgacagggacagcatcgttaggcattatctaaaccctccaatcagagCtcgttacatccgttttcaaccaatagcttggaatacctacatatccatgaggACTTCGGCGACAACGCAGGAAGGACTCTTTCGCTTCTCTCGCCCGTGGAGAAAGAAGAAAACGACTCTTTATAAGAGTtgctcagatgtttggaagtctggagaaaaaaccagtggagtgtacaaaattgatccagacggtttgggagattttgaagtgtactgtgatcacaagacagcaggtgggggttggacggtctttcaaagaagactagacggctccgtagatttctaccgtgcctgggacgcctacaaacggggctttggcaatctgagcagagaattttggcttgggctggacaagattcaccgcctgactgttagcgagaatacgaaacttcgcgtggacttggaagacaatctcggaaataaagcatttgcagaatacagttcctttactgtggcaaacgagcaggcaaaatatcagctGAGTGTGGGAAAGTACTCAGGCCCtgtggctttgtggagaacagcaacgaagagtactgacgtgcgtgcctcacgagcaaaacgattatttttttctgtttatgagacggatcagaattctttgtttggggcgttgtcgtcgctgctgAGGCTCCCACCGCCATGTGGAAAGTCGTTGTCCCTGGGGACGAGTGTGCAAGTTATGCTAAAGTTCAATATGGCAGCGGGTTCGTATACAACGAGGCGTCGGCGGGCGGATAAATCGCACAAAAATGGCCTTTCTAAGCTAAAGCATGGGTTATCAGCTCTTCAGGAAGAAAAGCTCCAAGATTTCAAAGATTCTTTTGTAGAGGAATTCGAAGATACACCTTTCCAAGTGGCTGTGTTGACATATTTGTCATACTTTTTTTTGATTCTGTTCGGTTACTTACGTGACTTCATGCGAAAATATGGACTGGAAAGATCAAAAGCACCTAAGGAATCTGGAAACGAGGGTTTTGTCCCACTTTATGCAGACTTTGAAAGTTTCTACACAAGAAACCTTTACACAAGAATAAGAGACTGTTGGAACAGGCCAATTTGCAGTGTGCCTGGTGCTAGTATTGAAGTTCTTGATAGAGCAACCAATGATTATGGATGGTCCTTCAGGCTGACTGGAAACACTACCAAGGCCCTAAATCTGGGTTCTTACAATTACCTTGGCTTCGCAGAAAATGTTGGGCCATGTGCTGAAGCTGCAAAAGAAGCAGTGAAGAACTATGGACTGGCTGGTTGCAGCTCAAGGCATGAATATGGCACACTTAATCTTCACAATGAACTGGAAACACTTGTGGCTCGATTTGTTGGGAAGCCTGCAGCAATAGCCTTTGGTATGGGCTTTGCAACCAACTCTACCAACATCCCCACCCTGGTGGACAAGGGAGACTTGATAGTCAGTGATGAGCTGAATCACTCCTCCCTGGTGCTTGGTGCCCGATTATCAGGAGCAAAAATTAAAGTTTTTAAGCATAATGATATGAAAAGTCTTGAAAATATTCTCCGTGAATCAGTTGTGCAGGGTCAGCCTCGCAGCCACAGGCCTTGGAGAAAAATCCTTATCATTGTGGAGGGCATTTATAGTATGGAAGGCTCAATTGTAAGGCTTCCTGAAGTGGTGGCTCTTAAAAAGAAATACAAAGCGTACCTTTTCCTGGACGAGGCCCACAGTATTGGTGCATTGGGTCCTAATGGAAGGGGTGTGACAGATTTCTTTGGGGTGGACCCTGCTGATGTTGACATCATGATGGGAACTTTTACCAAGAGTTTTGGAGCAGCGGGAGGTTACATTGCTGCAACTCGGGAAATAATTGACCATATTCGAGGTAGTTCCCATAGTGCAGCATATGCGTCCTCCATGTCGCCACCAGTTGTCGTGCAAATTATTTCATCCATGAAAATGATCATGGGAGAAGATGGCACAGATAAAGGACAGAAAAGACTGAGGGCATTGGCAGAAAATTCAAAGTATTTTAGGCAAAGACTCAAAGACATGGGCTTCATTGTGTACGGTCATGATGCCTCGCCTGTGGTTCCACTTCTTCTTTTCATGCCCGCCAAAATTGCTGCATTTGGTCGTGAAATGCTGAAGAGAAACATAGCTGTCGTTGTCGTTGGATTTCCAGCGACTCCTTTGATTGAGTCTCGCACAAGATTTTGTCTTTCAGCCGCACACACTCGTGAAATGCTCGATAAGGCACTTGATGCCATAGATGAAGTCGGCGATATCCTCCTGCTCAAATACTCCAGAGAACATCAAAGGAAGTAA

Transcript

aint_s0066.g43.t1

GGTCACGTGATAAGAAGAGAGCTAGTAAGTGATGAAGGTCAATGTCGAGTGAAGTGTTACATGGAGCCCAGCTGTGTTTCAATCAATGTGGGGCCTATGAATCAGGTGACGAAGACGTGCGACTTAAACAATGCCACTGCTGATGGATCCCCAGGCAGCACACTAGAACAAAACATTGGATATTTGCATTTAGCAGTAGAGAATCATTGCCACAGTGACCCTTGCCGTGAGAAAAATGCACTTTGTCAAGTTGGGTTCACCGAAAAACGCTACAGATGCGTTTGCCAAGAGGGTTATCAGGGCACTCATTGCAACGAAGATGTAGATGAATGCACTCATAATTTGCACAACTGCGCACCGAACATGACATGTGTCAATGAGTATGGCTCGTTCTTCTGCAAAGTTCTCAATATGACATGGCGCAGTATAACGTGCGTAGGAAGCGATTTTGTCCGAAGGCACTTTGGGTATTGCATGGCGAAGCAACGATATCGCGGGAAACCAATAACAGTGGGAGGCCAAGCTGCGACGGGGCTGAAGAAGGGGAAAAGCACAGCTAAGgaattcactggcaacacagatgagaaCagtattgtgtttcatgacttgaatcctccaatcagggctcgttacatccgttttcgaccaacagcttggcatcagcgcatatctatgagagtggagctttacggctgttgtgattccctctcagttattgtGtgtgaAGCCGCAAAAGAAAACGTTATTTTGAAGGCAATTCTGACCAATTCTGAGAAACGTTTTACACTCACCTACGACACAATCGATTACAAGAATCCCTGCATAACAAACCCGTGTCCACACAGTTTTACCTGTCAAGTCGGATTTCGCGATCAAGGGTATCGGTGCGTCATTGCATGCAACAGATCCTTGGGTATGGAGAGTGGCAAAATATTGCATCAGCAAATCACTGCATCTTCCCAATGGAGTGCCCTTTTTGCCGCCCATCAAGGAAGACTTAACTTTCAAGAAGATATTGAGGGAGGTGTGCTAAAAAATTCAGGGTCGTGGACAGCTCTCATAAGAGATCAAAATCAATGGCTGCAGGTCGACTTGCTCCATCAAGAAATTATTACAAGTGTAGCAACGCAAGGAAGAAACAGGCATCCACTTTGGAAAACACACAACCAATGGGTGAAGAGTTACAAGTTGCAGTACAGCAACAATGGAGCCGACTTTGAATATTACAAGGATGAAAGACAAAACTCAGCTAAGgtatttgctggaaacaatgacagggacagcatcgttaggcattatctaaaccctccaatcagagCtcgttacatccgttttcaaccaatagcttggaatacctacatatccatgaggACTTCGGCGACAACGCAGGAAGGACTCTTTCGCTTCTCTCGCCCGTGGAGAAAGAAGAAAACGACTCTTTATAAGAGTtgctcagatgtttggaagtctggagaaaaaaccagtggagtgtacaaaattgatccagacggtttgggagattttgaagtgtactgtgatcacaagacagcaggtgggggttggacggtctttcaaagaagactagacggctccgtagatttctaccgtgcctgggacgcctacaaacggggctttggcaatctgagcagagaattttggcttgggctggacaagattcaccgcctgactgttagcgagaatacgaaacttcgcgtggacttggaagacaatctcggaaataaagcatttgcagaatacagttcctttactgtggcaaacgagcaggcaaaatatcagctGAGTGTGGGAAAGTACTCAGGCCCtgtggctttgtggagaacagcaacgaagagtactgacgtgcgtgcctcacgagcaaaacgattatttttttctgtttatgagacggatcagaattctttgtttggggcgttgtcgtcgctgctgAGGCTCCCACCGCCATGTGGAAAGTCGTTGTCCCTGGGGACGAGTGTGCAAGTTATGCTAAAGTTCAATATGGCAGCGGGTTCGTATACAACGAGGCGTCGGCGGGCGGATAAATCGCACAAAAATGGCCTTTCTAAGCTAAAGCATGGGTTATCAGCTCTTCAGGAAGAAAAGCTCCAAGATTTCAAAGATTCTTTTGTAGAGGAATTCGAAGATACACCTTTCCAAGTGGCTGTGTTGACATATTTGTCATACTTTTTTTTGATTCTGTTCGGTTACTTACGTGACTTCATGCGAAAATATGGACTGGAAAGATCAAAAGCACCTAAGGAATCTGGAAACGAGGGTTTTGTCCCACTTTATGCAGACTTTGAAAGTTTCTACACAAGAAACCTTTACACAAGAATAAGAGACTGTTGGAACAGGCCAATTTGCAGTGTGCCTGGTGCTAGTATTGAAGTTCTTGATAGAGCAACCAATGATTATGGATGGTCCTTCAGGCTGACTGGAAACACTACCAAGGCCCTAAATCTGGGTTCTTACAATTACCTTGGCTTCGCAGAAAATGTTGGGCCATGTGCTGAAGCTGCAAAAGAAGCAGTGAAGAACTATGGACTGGCTGGTTGCAGCTCAAGGCATGAATATGGCACACTTAATCTTCACAATGAACTGGAAACACTTGTGGCTCGATTTGTTGGGAAGCCTGCAGCAATAGCCTTTGGTATGGGCTTTGCAACCAACTCTACCAACATCCCCACCCTGGTGGACAAGGGAGACTTGATAGTCAGTGATGAGCTGAATCACTCCTCCCTGGTGCTTGGTGCCCGATTATCAGGAGCAAAAATTAAAGTTTTTAAGCATAATGATATGAAAAGTCTTGAAAATATTCTCCGTGAATCAGTTGTGCAGGGTCAGCCTCGCAGCCACAGGCCTTGGAGAAAAATCCTTATCATTGTGGAGGGCATTTATAGTATGGAAGGCTCAATTGTAAGGCTTCCTGAAGTGGTGGCTCTTAAAAAGAAATACAAAGCGTACCTTTTCCTGGACGAGGCCCACAGTATTGGTGCATTGGGTCCTAATGGAAGGGGTGTGACAGATTTCTTTGGGGTGGACCCTGCTGATGTTGACATCATGATGGGAACTTTTACCAAGAGTTTTGGAGCAGCGGGAGGTTACATTGCTGCAACTCGGGAAATAATTGACCATATTCGAGGTAGTTCCCATAGTGCAGCATATGCGTCCTCCATGTCGCCACCAGTTGTCGTGCAAATTATTTCATCCATGAAAATGATCATGGGAGAAGATGGCACAGATAAAGGACAGAAAAGACTGAGGGCATTGGCAGAAAATTCAAAGTATTTTAGGCAAAGACTCAAAGACATGGGCTTCATTGTGTACGGTCATGATGCCTCGCCTGTGGTTCCACTTCTTCTTTTCATGCCCGCCAAAATTGCTGCATTTGGTCGTGAAATGCTGAAGAGAAACATAGCTGTCGTTGTCGTTGGATTTCCAGCGACTCCTTTGATTGAGTCTCGCACAAGATTTTGTCTTTCAGCCGCACACACTCGTGAAATGCTCGATAAGGCACTTGATGCCATAGATGAAGTCGGCGATATCCTCCTGCTCAAATACTCCAGAGAACATCAAAGGAAGTAACTGAACAATTCCCAGCAGCTCGAAGTCTTCGTAATAGCGTGACGTGAACAAGTCGCCATTGTGGTCGCTTTCTTGTTTTTCATAGCATTTTTCAAAGCAATTTTTAGGCTAGTATAAATGGATTTTAACGGGACTGTTGTCATAGAAAAGCCAGACTAGTTACTATGGCCAGTCACAAGAGATACAAGAAAAACAAGAAAGCCAATGAGAAAGTAAAGCAAATACATCTGTGGGAAAAGGCCTGTGAGCCAGTCACAGCTGCTTTTGCTTTTGCCGCTGATTGGTTGGGAATTCAGCGCCAAACTTCTTAGCCAATCGTTCTTCGATGTAATAAAACTAAAGTGATTTTGGTTGCGCATAGAAACGTCGTCGTCAGATGTAAGCTAGGGCTTGCAATACCAGCATAGCACACACAGGAAAACCAGGGAGAAAATTTTATTGTTATTCGTGCACTCCTCGGTTTCTTTATTTCAAAGTGACACTTATACCTTAGCGTAAGCAATTCTAGAGAAGGTGACCCCTTCAATACGAATAGCATCGTAGCAACTCATTCTGTAACATACATACAAGTTtacatatacaggcaaaaactaacgaaaaagagtccgacgtttcgccgacatcttggcgccattgtcaaggaaaactaaagcagatatgcagtctcaagagtaactaaGAGATGTGTTTAGATATTACATACAAGTTGGTATTTTATTTTACTTGATGAAACAGTTTCCGCTAGGAGTTATAGAAAGTTTCAATGACAGCTTCAAGAGCTTACCTAAACAGTGTGGCCAGTTTATTTGCAGCCTTTGAATGTTGTTTTTCATGTAGCACAACCGACTAAGGTGTTGCAAAAAAATTTATGAGCAATGTAATTCTATAGTATTAGTTGCATATTTCTCAAAACATTCTATTGTATTTACCAGGCAGGGGGTTGCTCGTCAAAAGTTCTGTGCTATATATATGAATTTGTAAATTTTGAATTTCCCCTAAATATTTTTACCCTTTGTCTCATATGGACGTGATAGGATGCAGAGTGAAGCCGAGTCAAATCTCCAGAAATCTGAATTTATTTACTTAAGCGAGGGGAAATTATTGATGTATAACATTAAAAAGGAAGATACAAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q3B7D2	Serine palmitoyltransferase 2 OS=Rattus norvegicus OX=10116 GN=Sptlc2 PE=1 SV=1
P97363	Serine palmitoyltransferase 2 OS=Mus musculus OX=10090 GN=Sptlc2 PE=1 SV=2
O54694	Serine palmitoyltransferase 2 OS=Cricetulus griseus OX=10029 GN=SPTLC2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001567 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07645 all species →	EGF_CA	Calcium-binding EGF domain	Domain	Interproscan
PF00155 all species →	Aminotran_1_2	Aminotransferase class I and II	Domain	Interproscan
PF00754 all species →	F5_F8_type_C	F5/8 type C domain	Domain	Interproscan
PF00147 all species →	Fibrinogen_C	Fibrinogen beta and gamma chains, C-terminal globular domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR008979 all species →	Homologous_superfamily	Galactose-binding-like domain superfamily	Interproscan
IPR050087 all species →	Family	8-amino-7-oxononanoate synthase class-II	Interproscan
IPR001917 all species →	Binding_site	Aminotransferase, class-II, pyridoxal-phosphate binding site	Interproscan
IPR049883 all species →	Domain	NOTCH1 EGF-like calcium-binding domain	Interproscan
IPR001881 all species →	Domain	EGF-like calcium-binding domain	Interproscan
IPR002181 all species →	Domain	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Interproscan
IPR018097 all species →	Conserved_site	EGF-like calcium-binding, conserved site	Interproscan
IPR000421 all species →	Domain	Coagulation factor 5/8 C-terminal domain	Interproscan
IPR004839 all species →	Domain	Aminotransferase, class I/classII	Interproscan
IPR015421 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, major domain	Interproscan
IPR015422 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, small domain	Interproscan
IPR015424 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase	Interproscan
IPR014716 all species →	Homologous_superfamily	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Interproscan
IPR036056 all species →	Homologous_superfamily	Fibrinogen-like, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13693 all species →	CLASS II AMINOTRANSFERASE/8-AMINO-7-OXONONANOATE SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004758 all species →	Molecular Function	serine C-palmitoyltransferase activity	Interproscan
GO:0017059 all species →	Cellular Component	serine palmitoyltransferase complex	Interproscan
GO:0046512 all species →	Biological Process	sphingosine biosynthetic process	Interproscan
GO:0046513 all species →	Biological Process	ceramide biosynthetic process	Interproscan
GO:0016740 all species →	Molecular Function	transferase activity	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0009058 all species →	Biological Process	biosynthetic process	Interproscan
GO:0030170 all species →	Molecular Function	pyridoxal phosphate binding	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

No KEGG orthology assignment for aint_s0066.g43.t1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Co-expression network

Genes whose expression across the transcriptome samples of Acropora intermedia tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Acropora intermedia, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →