Gene detail

Detailed information of ENSSYXP00000007434.1 in Micromussa lordhowensis

Genomic Location: chr3:13970218...13994695
NR annotation: XP_020611648.1, protein mesh-like isoform X4 [Orbicella faveolata]
Species Micromussa lordhowensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSSYXT00000007811

CGCGTGTGGCTTGTCTATTCGCAGGTATTGGGTGTGCTTTGTCTTCATATCATTTCGTGTTTCACAGTTCCCTTGAGTGATTTCTATCCGTTCGGAGTCAGCGAAGGCGACACAGCACTTCCTGCAAATGACGACGGCAGCTCTGGAGAGATTCCAATTTCAATCCTCTTTCCGTACTTCGACTGGTACCACGATTCTTTATTCGTGAACACAAATGGAGTTGTATCATTTCTAGTGGGGGTGAGTCAGTACACCCCAACTCCCTTCCCCTTGGGGGATGAGCGACGGCTTATCTCCCCGTTCTGGGGTGATGTAGATACCAGGAATGGAGGAACTGTCTTGTACAGGGAGTCCACAGACCCTGTGTTACTACAGCGGGCTACAGCTGATGTTCGCAGAGCCTTCCTGGCTCATCAAAAGTTTTCCGCAACATGGATTTTTATAGCGACCTGGGATAGGGTTGCATTCTTTGGAGCAAGTGAAAGTGCTAAAAGCAAGGTTAATACCTTTCAAGCAGTACTGGTCACTGACGGACGCCATTCATTTGCCATCTTCAATTATGATGTGATTGTGTGGACAACTGGAACAGCCAGCGGAGGAAATGCTGATGATGGGCTGGATGGCACCCCTGCTCAGGGTGGTTTCAATGCAGGAGATGGTATTAGGTTCTTTGTTATTCCTGGCTCAAGAACACACGATATTCTCAATCTTCCCTCAACTTCAAATGTAGCTCGTGCTGGACAGTGGATGTTCCGTACTGATGAGGCTAGTGTAGAAGCTGGAGGGTGTGGTTCAAGAGGGTCGAAGACTCTGACCCTCTCACCTCGTTCAGGGATAATGTTAGGAGGGACGAATGTCAAAATGAGTGGACCTTGCTTCACTGCGGATGACAACATTGTTGTTCAGATTGATAATGAGATCAACATAAACGCTACATTTGGAAGTGAACTGCAGTCTTCAGTCACTGTACCAGTGTTGAACAAGACAGGAAGGCTGCCAATCAAACTGTCCATTGATGGGGGAAATTCTTTTGACTACAATGGAGTTTACACATCAGTTCCAATCAATCGTTATGCTCCTGGCATCCAGCGAACAGATGGGGATTTGTGGCAGGAGGATTCCTCAGTGGATATCAGCTGGGAACCAGAAAGCATTGGTGGTTTTGATGATGAAGTATCAATTGATTTGGCTCGTTATAAAATGGATGAAGATGATGAGCCGGTATTGCATAGCTTCCACACGGCAGTGGATGCACAGTTGAATAATGGTCACAGCCAGTTTGTTGTTACAACAGGGCAAGGGGATGGGAACATTGATGATCGCTTCGTTAATGTTGTTCGTGTATCAAGGAAGAGTGGTGGTAGTAATGTGTCTCAGTCACAGTGGGTATGGAGTGATGTGTTTGCCTGGAAAAATGTGCCATGGGCAAATGATAGGTGTAGCAAATGGCATCTGAAGGAACCTAGCCCAGACAAATTCACAGGTGATTCCAGTCTCCAGCCCTGTCCTAGGATTTTAACCCAAGCCATGGCTGATCGAGGACGCTTCATGTTGGACGAAGAGTGCAATCCATCCAACAGAGATGGATGCGCTCGTTACCATGAAGGAGCTGTTCACTGTTTTAAAATGGTCAATCCAAGTGCCACCGGTGCAGGTCAACAGTGCTGCTACAACAACTTTGGCAACTTGATGATGGGCAAACATGCCGGATCTCTTGATCGAGTTCATCCTAATGCTGGTGTCCCTGTGATATCTCACTTCTTCCACGACATTGTACCATACCAGGACTGCTGCAGACTGACCAACAACTGTGAGAAGTATTTTGAAAAGCGGCCCTCAGATGATGGATCACAATACCAAGCACCGAGACCTGCCACTGGATTTGGTGACCCGCACATGGTGACGTTGGATGGTACGCCCTTCACGTTTAACGGTTACGGAgaatatttcattttaaaagTGAGTGGGGTGGACTTCGCTTTGCAAGGGCGCATGGAACCTCTTGTGGTGGATGATGGGTCGCTATCACGTGCCACTGTTTACACAGCATTTGCCGCCAAGGAACAAGGATCAGACACTGTACAGATTCAGTTAAATGGTCGTGGGTTGGTTGACGTTTTGGTGAATGGTGAGGCAGTCATTTTTGACGAGCTCTTTTTTATGGAGTTCAACGGCGTGTCTGTGTTACAGTATGTTAACACATCCAAGTTCTCTGCCATTTTTAATTCTGGGATCTCCGTCACCGTAGAGGGACAACAAGAACTTCTTGGTCTCGTGACATTGGTGCCGACAATTTTCAAAGGGAACACAACAGGCCTCCTAGGCTACTGGGATGACAGTCAAGAGTCAGAATTCCTTCGACCTGATGGAACTTACTTGAGCACAAACTCCAGCCTTGAAGTTGTACACAGGGAGTTTGGACAGCTATGTATGCAACTCAAGATAATTACAAAATATTTGACTTCTCGTGGGATTGAGGAAATACGACAACAAACTGATTTTATAGCTTCCATCATTTCTATATATTTGCGGCAAATAAAGCAAACTTGCTGTTTTAGTTCTGCAAGTGACGTGCTGCTAGAAAGGTGGGTTACCAGACCAGCTGAATCCCTGTTTGTCTACCAACAAGGCCAAAGTCACTCTACATTCCATCGTCCAAGCTACCAGCCAATTTTTCCTGACAGCCAAAGTTTGGAGTTCACTGATAAAGCGCTGGAGAAGGAGGCTCAGGATATCTGTGGAGACAGCTCAGAGTGCTTGTTTGATATTTTTACAACTGGAAAAGTGCGCATCGGGAGGGCTACAAAAGAAACTGTCAAACAGTTTGTCGCGGTGGTAAACGATACTGTTAAACCAGCTTGTGTGCCGCTGGACTCTCGGCTAACTGATGGTGTTGTTCACAGAAATGACACGGAGGATGGAATTGATTACACGTTTGAGTGCAACAGTGGTTTTGTCATGAACGGGTCAAAACACGTGAAATGCGAAGACGGAGTTTACAACGGCTCAGCTCCAAACTGTTTACCTAAAGGTTTGGGGAACAACaggagtgtgtgtgtgtgggggggggggggggagagagggGAAGGGGGTGGGAGTGCAGAAGCCCCATTCGAAACGTGTGACATAAGACAGAGCCTcagacgagaaaaaaaaaacaAGTGTCCAGTACTTCCTTCATCCATATCAAACGGCACCGTTTATGGTTCAGGTCATGTCCAAGGCTCGCGCTGGAGGTTTAGCTGTCACCATGGTTATTCTCTTGTTGGCCACCAAGTTTTACAGTGTACTGAGCAGGGACTTTGGAATTCTAGTGTTCCTACATGTTTGAGAGAGTGTCCAGTACTTCCTTCATCCATATCAAACGGCACCGTTTATGGTTCAGGTCATGTCCAAGGCTCGCGCTGGAGGTTTAGCTGTCACCATGGTTATTCTCTTGTTGGCCACCAAGTTTTACAGTGTACTGAGCAGGGACTTTGGAATTCTAGTGTTCCTACATGTTTGAGAGagtGTCCTGTCCTTCCTTCATCCATTCCAAATGGATTTGTCAATGGAAGGGGCTCGGTGGAGGGATCACAGTACCAGTTCAGCTGCAAACAAGGATATTCGCTTGTGGGGACAAACACATTGTACTGCAACGACCAGGGAAACTGGAACGGCTCAGTGCCAAGCTGTCTCATAGGTTGGTCATTTAGTTTAGTGACTAGAATGATGAGAAACATCTTGCATTACCGTTTCCCTCAGAGTGTTATCCCTATTTGTCACATTGATCCATGTCCTTTCACTCTGCCTTCCTCGATACCAAATGGCCGTGCTAATGGCACAGGCTCGTTACATGGCGCCCTCTTCGTGTACAGCTGCCTGCAGGGTTATTCTCTCATTGGACAGAAAACGTTGCTGTGTACAGAAGATGGAAATTGGAATGCCAGCGTTCCAAAGTGTCTCAAAGGTATTTTTGATTCATGGAGTAAACGTGATCAAGGGGCGGAGAGGTCTGTGAAACTGCTGCAGCTTGGGAATATTGACTCGaaaattttgtattgTCCCAACCTCCCTTCATTCATATCACATGGATTTGTCAACGGGTCTGGTTCAGTGGAAGGTTCTCGACAACACTTTAGTTGCGACGAAGGATATTCACTCGTTGGACAACACACGCTCTACTGTGGCAAGGATGGGTCATGGAATGGTTCGGTACCCACATGCCTCATAGAGTGTCCACAACTGCCTTCCGCAATACAACACGGTAATATCGATGGTTCAGGTCGCGTTCAAGGCTCTCTACATAGATTTACTTGCAACGATGGTTATTCAGTTGTGGGGCAAGATCTTCTGTATTGTAATGAGATGGGTCAGTGGAACGCCAGTGTCCCTAGATGTCTCAGAGAGTGTCCTAAACTACCTCCGACACTACAGCATGGCACAGTTAACGGTTCAGGCCACCTGGAAGGTTCTCTATACAGATTTACTTGCAACGATGGTTATTCCAGTGTGGGACAAGATGTTCTGTATTGTACTGAGATGGGTCAGTGGAACGCCAGTGTCCCTGTTTGTTTGAGAGGTAACAACAGAGGTGGTGGACTTTATCTAGACAAAGGGAACTTTACGTGTAAAAATGTGATTATCGCATGGTTCAAAATTCCTTGCAATGCAATCATCTAG

Transcript

ENSSYXT00000007811

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q70E20	Sushi, nidogen and EGF-like domain-containing protein 1 OS=Mus musculus OX=10090 GN=Sned1 PE=2 SV=2
Q5ZQU0	Sushi, nidogen and EGF-like domain-containing protein 1 OS=Rattus norvegicus OX=10116 GN=Sned1 PE=2 SV=2
Q8TER0	Sushi, nidogen and EGF-like domain-containing protein 1 OS=Homo sapiens OX=9606 GN=SNED1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000635 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03782 all species →	AMOP	AMOP domain	Domain	Interproscan
PF06119 all species →	NIDO	Nidogen-like	Family	Interproscan
PF00084 all species →	Sushi	Sushi repeat (SCR repeat)	Domain	Interproscan
PF00094 all species →	VWD	von Willebrand factor type D domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000436 all species →	Domain	Sushi/SCR/CCP domain	Interproscan
IPR035976 all species →	Homologous_superfamily	Sushi/SCR/CCP superfamily	Interproscan
IPR003886 all species →	Domain	NIDO domain	Interproscan
IPR001846 all species →	Domain	von Willebrand factor, type D domain	Interproscan
IPR005533 all species →	Domain	AMOP domain	Interproscan
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR051495 all species →	Family	Epithelial Barrier and Cell Signaling Protein	Interproscan
IPR014756 all species →	Homologous_superfamily	Immunoglobulin E-set	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13802 all species →	MUCIN 4-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0007160 all species →	Biological Process	cell-matrix adhesion	Interproscan
GO:0005615 all species →	Cellular Component	extracellular space	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
K23820	SUSD2; sushi domain-containing protein 2	-	Domain-containing proteins not elsewhere classified	ko04990	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 Micromussa lordhowensis 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 Micromussa lordhowensis, 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 →