Gene detail

Detailed information of BRAKERYMEP00000005069.1 in Astreopora myriophthalma

Genomic Location: BLFK01000134.1:4149342...4167615
NR annotation: XP_029179381.2, sushi, von Willebrand factor type A, EGF and pentraxin domain-containing protein 1-like isoform X2 [Acropora millepora]
Species Astreopora myriophthalma · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERYMET00000005069

ATGATCGATTTTTCAGATACTTCAATCGTTCAAGGACTTATTTTGAGGAATTTGTTGTTAGACCGTAATACATCTAGAAGTGCAGCTGTTCAAGGGCTATTCTCCTGGAATTTGTTATATAACGAAGCTCCATACTACACTTCATGCCCTCAAGATAAGGTAGTTGAGACAAGCCAATCATCCGAGCGAGTGCTATGGACGATACCACAATTCCTGGATAACTCAAACGTAACTCCAGTCGTTGAAAATAACAAGAATTCTGGCGAAACTTTCTACATTGGAGAGGTTATCGTTTATTATGTGGCCAGAGACCAGTCTGGGAACGTTAACGACAGCTGTGGATTCACGGTCGAAGTTAAAGCCAAGTCCTGTCAAATGTATCCGCCTCCTGAAAATGGGGCTTTAGCTTGTAACGCGTTTGGCATTAGCAATCGATTCTGTCAAGTGAGTTGTAATGACCAATATGATTTCGCCTTCGCGCCTGCTATCACTTATCTCTGTGGTAACGGACTGTGGAATGCTTTTGGAGGTCCACCACCCCCATGGCCTGATTGTTCTGTCCGCTATACACCTGGAAAAGCTCGCATGGCTTATTTACCGCAATTCTTCTACTTTTCCGGTGACTGCAACTCTCAGGAGGCACAAGATCAAATCAAGCTAAACTTCATCAATTTACTAAACGCTCAATTTATCCCAGCAAGTATTTGCAGAAATCAGCCCGCGGAGTGTCACGTTGGTAATGTGAACGTCTATTGTGGCGCAACTAACGCGGCTAAGCGGCGCCGTCGTAGTGTCGTACGTGAGGTTTATGTCAAAGTGGATATAGTAGCACAACAGCAATCAGGCGGTGCTTCGCAGACACTATCACAACTGGAACAGATTCTGGACAATAATGCCAAACCTCTGATGGATCAACAAGCAAAGTCATTTGACTGGAGCTCACTCCGTTCGTCAACTGACCTTGAATATGAGAAGTATACGTTGAGTGACGCTGAGGCGTATTGCTCTGAATCCGGTGCGGTGGTCGGCAAGTGCGACTCTCTGGAATCCGGTTGCGATGGTGAAGCCAAGCCTCACAGCCTGTGCCAGTGCAATAAAGATTCAGGACAAATAGAAAAATGCATCCGCTGTCCAAAAGGATCGTTTTATGACTCGTTGCAAGAAAAGTGTATCCAGTGCTCACCAGGAAGCTATCAGAATCAAGAAGGAAGATTCGAGTGCCTACAATGTCCAGAGGGAACTTGGACCATCGGCAATGATAGCAAGAACTTTACTTCTTGTCTAGAAAAGTGTAAACCAGGGTACTTCTCATCAACCGGACTCGCCAAGTGTTTTCCTTGCCCGAGCGGAACGTATGCTTCCGGACTGATGAACACACAATGCACCATTTGTCCGACGGGGACAACTACCATATTGCCGGCGGCCGGAGGACGAGAGGAATGCGGAATGAAGTGTGCTCCTGGTACATACTCGGAGAATGGTGTGGAGCCCTGTAAACCATGTGAAAAGGGTTCCTATCAAAGTGCTATAGGGGCCTTGGCTTGCGTAGAGtgcacagctggaaaatcaacGTATGGGCCTGGCGCTGATGCAGCGGTTATGTGTGTCGCGATTGATGATTGTGCGTCAAATCCGTGTAACAATGGAGGAACATGCACTGATCTGAAAGATGACGTCAGCTGTGATTGTGCTGCCGGATACTCTGGAAAGTTATGTGAAATCGAAAACAACGAATGCTTGTCTGATCCTTGTTACCAGGGAGCGACGTGTGTTGACAAGCTAAATGGATATGAATGCGTCTGCGCTACAGGATTCAGTGGTAGACGGTGTGATGTTCCCTCACAAGTTTGCGGACCAAGCATCTGTCAAAATGGTGCAACATGCGTTGTCCAGCCACCAGATTTCGTTTGCGAATGTCCATCAGGTTATGGCGGGAAATTCTGTGAAATGAAGATCGATCACTGTGCGTCGTGGCCTTGTCACAATCATGCGACATGTTCGAGTTTGACCGAGAACTATCATTGTTCCTGTAGACCTGGGTATGAGGGAGTGCAGTGTGAAATAGACATTGATGACTGTGCTGACAACCCTTGCCTGAACAACGGAACGTGCGTGGATGGTGAAAACAGATATACGTGCAATTGTCAAGCTGGTTTTACAGGATCGCAGTGTGAAATTAACATCAACGAATGTTTGTTGGATCCTTGTAAGAATGGAGGCCACTGTGTAGACAAGGTCAACGGATACGAATGCATCTGTAAGCCAACATTCTCAGGAGTCAACTGCGCTAAAAaattttgtcACACCTTTGACTTGTCCTTTCCTCTACGGGTAGCGACCTCCTCATCAAGTGTTCAAAATATTCCAGACATGCATGCTTTTACAATAGCCTTTTGGCTTCGAACTGATGATACAGAAAACCCAGGAACACCTCTGTCGTACTCCAACAAGATGGGAGGCAAACTGCAAGATAACGCACTTGTCATCCAAGATTATGGCGCCTTTGCTCTGCACATAAATAATAAGAAACTGTTCATTGGTGTATCAGCCAATGACGGCAAATGGCATCACGTGGCCATCACGTGGGACAGCAGCGGTGGTAAATGGGTCTTTTACAAAAACGGACAGGAAGTAAAGAGGTACGTCTATTGTCTACTTTCACCATAG

Transcript

BRAKERYMET00000005069

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P0C6B8	Sushi, von Willebrand factor type A, EGF and pentraxin domain-containing protein 1 OS=Rattus norvegicus OX=10116 GN=Svep1 PE=1 SV=1
A2AVA0	Sushi, von Willebrand factor type A, EGF and pentraxin domain-containing protein 1 OS=Mus musculus OX=10090 GN=Svep1 PE=1 SV=1
Q4LDE5	Sushi, von Willebrand factor type A, EGF and pentraxin domain-containing protein 1 OS=Homo sapiens OX=9606 GN=SVEP1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000607 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12661 all species →	hEGF	Human growth factor-like EGF	Domain	Interproscan
PF13385 all species →	Laminin_G_3	Concanavalin A-like lectin/glucanases superfamily	Domain	Interproscan
PF07699 all species →	Ephrin_rec_like	Tyrosine-protein kinase ephrin type A/B receptor-like	Domain	Interproscan
PF00008 all species →	EGF	EGF-like domain	Domain	Interproscan
PF02494 all species →	HYR	HYR domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013032 all species →	Conserved_site	EGF-like, conserved site	Interproscan
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR018097 all species →	Conserved_site	EGF-like calcium-binding, conserved site	Interproscan
IPR003410 all species →	Domain	HYR domain	Interproscan
IPR000152 all species →	PTM	EGF-type aspartate/asparagine hydroxylation site	Interproscan
IPR001881 all species →	Domain	EGF-like calcium-binding domain	Interproscan
IPR013320 all species →	Homologous_superfamily	Concanavalin A-like lectin/glucanase domain superfamily	Interproscan
IPR011641 all species →	Domain	Tyrosine-protein kinase ephrin type A/B receptor-like	Interproscan
IPR051830 all species →	Family	Neurogenic locus notch homolog	Interproscan
IPR001759 all species →	Family	Pentraxin-related	Interproscan
IPR009030 all species →	Homologous_superfamily	Growth factor receptor cysteine-rich domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24033 all species →	EGF-LIKE DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion 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 BRAKERYMEP00000005069.1.

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 Astreopora myriophthalma 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 Astreopora myriophthalma, 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 →