Gene detail

Detailed information of XP_020617543.1 in Orbicella faveolata

Genomic Location: Sc7jCM8_2603:61515...68037
NR annotation: XP_020617543.1, uncharacterized protein LOC110055495 [Orbicella faveolata]
Species Orbicella faveolata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_020761884.1

CCTGTATGAAGCTCCCACTGTAgcattattaatttttcaggtagtttcaaagtaaattaaaatccCTCACAAATTGCAAGCAGACTTTAAGAGTGCCGCAGACATAAATTAGATAAAataaagtgtttttgttttctctttggcggtaagtttctgttttactgGCACCTTTAATGACAAGCAATTCATACCAAGCCAAGTGAAATTGATTTAGTGATTAAGCCTGACACTTGGGAACTAAATAGAGAGATTTTGCGTGACTGCAGCCCTATCCGGAACATATAGTATACAGACAGACATGagctttatttgagtgtcaatAAGGAAGTGTTCTTCATCATATGTCTGAACAGATGAATCCTGCGCGAATATTCACATCTCAGTTCCTCGGCCTTTGAGAAAGTTAGCTTTAATATACACTGTCATTAGGATTTTAACGCACATATTCACGCTGATATCTTTTGACTTCTCGAGAATTGCGAGCTTacttcaaaaaaaagaaaaaaagagcgTTTCTTCCCTTAATTTATTGTTACGTGTTAGCTAAGTATTCGCGGACATGTCGCTGAAACTTTGGTTTTCTCTGTGCATTCAATAGAGCATAACGTCTTCAAAATTCAGAGGtgggaaaaataattaaaaatgaacgCCCAGTAAGCCCGGATCAATTGctagctgttttgtttttgttgcttttgttgttttgttttttttttacttttcttgtgcGACCGAGACAGGTGCAAACAGTGTTCAGTAGGGAGGAAAACGTCACACGCTTGAGCCAACATTTAGGTTTAAGTTGTCAACCAGCTTTACAACCGACATATCGCTTTCCTTCCCGCTTCTTCCCGTTGCCATAAGAACAGCACGTCAACATGGCTTGCCATGGAAACGAACGATGCCTTAAAATGCAAACTTCGATCACACTGACCCTTGTTCTCCTGGAATGGATTTTTGCCACTGATGGGGAGTTTGGTGACGAAAATCAGAGAGAAGTGTTGTTTTACAGTATAAAATCAGCATCACTTATCGGCAAAGTCACAATGACCACACTGGTAAAAGATGAGCTGGAATGTGCGTTCATGTGCTTCCGGCATTATCCAAGCGACTGCCTTTCATTTAACTTCCGCAGAGAGTCCATCGGCGAAACGCACGTCTGCGAACTCAGCAATTCTGAAAGGGCTTTGGAGCCAGACAGAATGCAAAATGGGCCAGGATTTGATTATTTTGGCGTACAAACGGTGTACCTATCTAGGTTTTACCCATGTCTGTCGTCTCCATGCCGTTATGGAGGAACCTGTTTGAATGGTCCAGAACTGGAAAGGTTCTGGTGTAACTGTTCCTTGGAGATAAGTGTACTGCCTTACATTGACAACAAGTGCAACGTCAATAAAACCTTAATCATTGAAGGCTCTCCAGTCGGACGCGTTTTCTACGCAGCCGTGGATAAGGCGAAAATGAACTATTATGAAGCCGAACGACTTTGCGAAATGCTTGGAGCTATTTTGGCATCACTCGATCAATTAACTGCGGCTCATAAGGCTGGACTAAACCAGTGCAATTATGGCTGGCTGATAGATGCTACTGCTCGTTATCCAATGCAAACAGTCAAGCCAAACTGTGGAAACAGAACCGGAGTCATAGGAAATACAGCTAAACGTGATAAACATGATAAGCGATATAGCGCATACTGTTACAAACTTTAGAAGGTTAATCTGGTGAAGTCAATTCCAATGACGATAATAGCcgtaaaatgaagactgataTCACTTGAAGCAGGTCTTAAACAATCGACGCAAGTTTCTATTGTTTACATGAAGCACGTTATGTTTTTCAACAGAAACGAAGGGCACTCAAATATAGCTTGCTATCGCAtgataaacaaacaagtaaCTAAATACAGTCACTGTCAGTGAATGTAGTATTTTtagacagaaaaacaataacTTAGCTGAAAAACGctcacaaaacattttttcttcaagaaaatctACTTAACGACGTTGTACAAAGAGGAAGCATGAGCTTCGGGGAAAGAGTTTGTAATACTATTTATCGTATGACCAGTACGGCCCCGCGggcaatttc

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P13611	Versican core protein OS=Homo sapiens OX=9606 GN=VCAN PE=1 SV=3
Q28858	Versican core protein (Fragments) OS=Macaca nemestrina OX=9545 GN=VCAN PE=2 SV=1
Q62059	Versican core protein OS=Mus musculus OX=10090 GN=Vcan PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001789 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00193 all species →	Xlink	Extracellular link domain	Domain	Interproscan
PF00024 all species →	PAN_1	PAN domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000538 all species →	Domain	Link domain	Interproscan
IPR003609 all species →	Domain	PAN/Apple domain	Interproscan
IPR043210 all species →	Family	CD44 antigen-like	Interproscan
IPR016187 all species →	Homologous_superfamily	C-type lectin fold	Interproscan
IPR016186 all species →	Homologous_superfamily	C-type lectin-like/link domain superfamily	Interproscan
IPR000742 all species →	Domain	EGF-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10225 all species →	HYALURONAN RECEPTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005540 all species →	Molecular Function	hyaluronic acid binding	Interproscan
GO:0007155 all species →	Biological Process	cell adhesion	Interproscan
GO:0004888 all species →	Molecular Function	transmembrane signaling receptor activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	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 XP_020617543.1.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_020617543.1 across 70 RNA-seq samples of Orbicella faveolata. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

70Samples

14TPM > 0

4Conditions

8.7Max TPM

1.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · control.pH_high.temp	21	4	0.90	8.67
holobiont · low.pH_high.temp	19	3	0.80	8.34
holobiont · low.pH Control.temp	16	4	1.29	5.55
holobiont · control.pH Control.temp	14	3	1.58	8.73

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214498	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	8.67
SRR22214502	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	4.76
SRR22214534	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	3.46
SRR22214497	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	2.11
SRR22214496	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214499	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214500	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214501	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214531	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214532	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214533	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214536	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214537	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214538	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214539	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214540	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214541	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214542	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214543	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214544	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214545	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214488	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	8.34
SRR22214479	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	4.03
SRR22214476	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	2.86
SRR22214472	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214473	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214474	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214475	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214477	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214478	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214480	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214482	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214483	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214484	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214485	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214486	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214487	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214489	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214490	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214491	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214529	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	5.55
SRR22214493	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	5.15
SRR22214525	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	5.14
SRR22214526	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	4.78
SRR22214494	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214495	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214517	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214518	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214519	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214520	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214521	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214522	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214523	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214527	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214528	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214530	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214510	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	8.73
SRR22214515	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	7.72
SRR22214513	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	5.61
SRR22214401	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214503	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214504	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214505	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214507	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214508	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214509	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214511	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214512	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214514	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214516	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00

Source: CnidoSite RNA-seq expression matrices (OFAVE_TPM, StringTie quantification over 70 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.