Gene detail

Detailed information of FUN_022978-T1 in Acropora pulchra

Genomic Location: ptg000017l:2181351...2194752
NR annotation: XP_029196723.2, solute carrier family 49 member A3-like [Acropora millepora]
Species Acropora pulchra · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

FUN_022978-T1

GGTATCTACACAACAAAATGCATTTTCATGTAGGATATTTGTAGGATATAAATTAAAAGCTGTTGAATTTTTCATTTATTTTAAAACCTTTGGATTATAACCACGAAATCCAGTCACAAAGGTAACAGCAAAACTTCGCCTTCCAGCCTCGAGAAATCGGATATGTACTTCATGTGAGAATGTCATATATGTGGTCATCCAGCTTACCCCAGAGGATTTCGTCTTAACCTTTGGAAGACAACCATGGAATCAAATCATAGAGGTTATCGCGAAACTTCGCCCCTTCTCAATCCGCGGCATACAGGGATATACTCGCGAAGTCTGTCACAAGAGGAAGCTATCCTCGGCGTTTCAAATAATTACTCCAGATTTCACCAGAGATATAGGTTATATGGATGGAGGTGGTATGTTCTCTTGGTGCTATTTGTTCTCAATGTTTCCAATGCGATGTTGTGGCTGTCTTTTGCTCCGATTGCAGACTTGACTGCTATTTATTATAACCAGAACCTGGATGCAATAAACTGGCTCTCCATCGTTTTCCTGATTTGCTATTTACTGTTTGGTTTACCAACAATGTGGATACTGGATGTTCTTGGATTACGAACAGGAATTCTCTTAGGTGCCTGGCTAAATGGTATTGGTGCAGTTGTTAGAATATTAAGTGGGATGGAGTTTGTCCCCCCAAACCTTAGGTTTCTTGTGGTGGTGATTGGTCAAACCCTTGCTGCCCTTGCACAACCATTTCTGCTATGTGCACCTACCAAGCTGGCTGGTGTGTGGTTTGGAGCCAATGAAAGAGGGACAGCCAATATGATTGCTTCCTTGAGCAATCCAGTTGGAGTTATGATCGCTAATGTACTGGCACCAGCATTTGTCACAAAAAAAAGCAACATTCCTCAAATGCTTAAGTATTTCTCGATTCCTGCTCTTCTTGGTATTGCCATGGCAACCCTTGGAGTGTGTAGTAGCACTCCACCTACCCCTCCCACTGCATCAGCAGAGGCCAAATCAGAGCCTTTCTTTTTGGGCCTTAGAAAGGTGTTGAGAAACAAGGCATTTTTTATTTTAATGGTTGCATTTGGAAGTGGTGTTGGTCTTTTTACTTGCATGACAACACTCCTTGAACAGATCATCTGTCCTCGTGGTTATGATGATAAACTTGCGGGAATAGCAGGAGCAGTATTGATAGCAGTTGGTCTTGCTGGAGGGGCGTTATCAGGATTCTACATAGACAAGACCAAGAAATTCGAAGAAGCAGCCAAAATGTCGTTTGGATGTGCCACCATATCGTGCTGTGTGGTTACAATTGTCACTAGTTTTTCTGGTCTGCCTGTTCTTCTCATCTGTAGCTGTGGATTATTTGGGTTTTTTGCATTTGCTCTTATGCCTGTGTGTTTGGAAGTTGGTGTGGAGTGTACCTATCCTGTGGCAGAAGCAACAAGTGCCGGTCTCCAATGGATGGCTGGTCAGGCCACTGGTATTGTTTTCATCCTAATTTGTCAAGTCTTAGAAGTTCCAAGAAAGTTGAAAGATTCCAAGTGTCTTAAAAAAGATAAGGACGGTGAAGTCGCAGATTTTAAATTTGCAATGTACTTCATGTCAGCGGCAGCCGTTGCCATGGCAATTCTTCTTATTTGCACGTTCAAGCCAACTTACAAACGCTTGGAGATGGAGCGCAAGAAAGAGGCTACGAGAATTTTGAATACAGAAACTTCGCAGCAAAGATTGCCCGACATCCCTGATAGCAGCAGTGACATTTCTTGATAAAGGTGGACACTTCAACTTGACCCTCGTAACTAGACTGTGCAGCACTCATTCGCAGCCTATTTCACCGAGTTTCCACAGAACGAGCTATTGCTGGAGCTGGTTGAGGTCACATTTTTGATTCCCGCGAAAATTTCATCATTTCCGGCCCTTGTGAGCGCGGGGGGTCGTTGATCTTTAATAGTGAATTATGGAAGACTTGTGATTAGCCAGAAAGTGCTTATACCTGTCTAAATATAACTCGATCTGAATTCACAATGGTAAACAAAGCGGAAGTGAAAGTGGCAAAAATTTTTATTTTTTTTGAAAAGCCCACTTTTACAAATTATTTCCAAATTGTCTTACGATTACCTATACAAATTGCACTCCACTTAGTTCAATTACCACTTTATTACATTCATTTAGGAACATCTATTTGGGAACAAAAATTGCAAAATTCGCCCCACAGTAGCTTTCTTTGCCCTTCATTTTTCTGCAATTTGATTGGTGCTAAAAAGAGCCTTGAAATCTGACTGGTTGTTTGTTTTAGTGTTCCTTTCTCATTTGCTGGGGAAAAGGTACGATTTAGAGCAGAAAAGATTCGTGAATTAATCGCACTGCAGAGAGCCGATCAGATTGCAAGAATAACCAGTGATTTCGAAAAGGATGTAATAAAAGTGTTAATTTTTCTTGGTGGGTTTAAAATAAAATTTCGTTCAGAAGGGGACTTTTTTTGCATAATAGTGCGGCACGTCTAAGGCCAGTGTGTTTCAAAAGGCACCGTCGGGAAAAAAACGAAATGTTTTTAATATTGTTTTTAATAGACGTGATGCGCTTTTTCTGTTTTCGAAGTACCTCTCAATTGTTTTTTACTTATTTTCGTTTTGATTCAAAGGGCGACGTTCAAATACGAAAAGCCAACTGACATTTACTTACCTATCCATGACGTAACGTAACCAAAATACTACATGTTTTTAAAATATCATGATGAATTATTTTTTAGAACTTATAATTACAATTATATTTATAATAATACGTAGCTTATATAGCGCTGCAGCACTTCTCAAAGATTTAGCGGTGCTTTGCAATAATGGTAATATAAATATAAAATCAATGAGACAATGAAATAAAAACCTATCAGAAATCACGGAAACCAAAAACTAGGACTGCCTAAAGAGATGGGTTTTAAGTTTACTTAAAAACGTTAGTCGGTGTTCCACTTGCCTAATGTCGTCTGGCAGGGCGTTCCACAGTGTGGGAGCTCTATGAGATTCTTACAGGATCTTAAAGTTCTATTAGGAATGTACAGTTTCAGTAGTTCATTTAGATACAGAGAACCCAGACAATTTATTATTTTGAAAACGAAAAGTATCTTAAAGTCAATACGGGCGGAGACAGGCAGCCAATGTAAGCTTCAAAATAAGTGCAGATGTAACGTGTTCATATCTGCTAGTGGGTGTTAACTGGCGGAAGGCTGAATTTTGTTCATGTTGCAGTCTATTAATTTGCGATTACTGTAGACCAACCAGATAAAACTATGTTACATTATGATCCAACTTCTACGAAATAAAAGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q28FF3	Solute carrier family 49 member A3 OS=Xenopus tropicalis OX=8364 GN=slc49a3 PE=2 SV=2
Q503P5	Solute carrier family 49 member A3 OS=Danio rerio OX=7955 GN=slc49a3 PE=2 SV=1
Q8CE47	Solute carrier family 49 member A3 OS=Mus musculus OX=10090 GN=Slc49a3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001268 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07690 all species →	MFS_1	Major Facilitator Superfamily	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR049680 all species →	Family	Solute carrier family 49-like	Interproscan
IPR036259 all species →	Homologous_superfamily	MFS transporter superfamily	Interproscan
IPR011701 all species →	Family	Major facilitator superfamily	Interproscan
IPR020846 all species →	Domain	Major facilitator superfamily domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10924 all species →	MAJOR FACILITATOR SUPERFAMILY PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0051184 all species →	Molecular Function	obsolete cofactor transmembrane transporter activity	Interproscan
GO:0022857 all species →	Molecular Function	transmembrane transporter activity	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K12306	MSFD7, SLC49A4; MFS transporter, FLVCR family, MFS-domain-containing protein 7	-	Transporters	ko02000	deepkoala

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 pulchra 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 pulchra, 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 →