Gene detail

Detailed information of XP_068734036.1 in Montipora capricornis

Genomic Location: chr13:27253695...27256284
NR annotation: XP_015779483.1, PREDICTED: vang-like protein 2 [Acropora digitifera]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_068877935.1

CGACTTGAAAGTGATAGATCAAACGTATCACTGAACGTGCAAATTGAATTCTGCCGGAGTTCAGAGCGCCATTTCGTTCTAAGACGTATTTTGAGCAGTGTAACACTTCGGCGCAAAGTCGAAATCGTTTTTAATGTAGAAGTGATCTTGAAGTGCTGCGATTTCTCTGAAATCTAACCATGCCAAGCCACAGGTCTGACCGCGGGCATAAGGACAGAGAACGTGATCAAAAAGACAAGAGGGAGAGGGAGCGACTGACAGACGATGCTGGAAGTCAAGAAATCTTAGATGAAGGGATTATACAAGTTCAGGTAATTCCACAGGACGATAACTGGGGAGAAACAGCCACATCGATCACAGAAACAGCAACCTCAATTGTAACCCTCAGTGAAACTTCTTTGAGCGACGTTGGGAAAGAGAAACGTTCACTCTCGTGTACCTTTGTTCGCCATGTTAAGTTAGTTCCAGCAGCGATTTTGAGCATATGTGCGGTAGTTTCGCCCATTCTTTTCGTTATATTTCCTCTTGTTACATGGAAACCTCAACCCTGTGGCTACGATTGCGACGGTGTTTTCATCAGCTTCGCCGTGAAAGAGCTTCTTTTAATTGTTGCAATATGGGCTTTGTATTTTCGGAAATCTCGAGCTTCAATGCCTCGTATATTTGTCCTTCGAGTCGGCTTGATGTTCCTCGTGTTTGTTGTTATCGTATGCTTCTGGCTCTTCTATGGCTTGAGAATCGTTTCTAAACAGACCCCCCGATTTTCAGACATTCTTCATTTTGCCGTGAATCTAACGGATACGTTGCTATTTATGCATTACACTTCGCTCGTTGTGCTTTGGATTCGGCAAAACGACCCTTTGTTTACATTGAAAGTCATTCGCAGCACGGACGGTGAAAGTAAATTCTATAACATCGGCCCGCTCTCGATCCAACGAACAGCAGTGTTTGTGTTAGAGCAATATTACAAGGATTTTCCGGAGTATAATCCGTTTCTCATGCAAACTCCGGCAAGGTCGtcgaacaaacagttttcaagTCTGAAGTTTTACGACATCGATGGCAAACAGAACGACAAAGTAAATCCTCGCGCTCGGGCCATCTTAACCGCGGCTTCCACTCGTAGACGCGATCCGGCGAGAAACGATCGTTTCTATGAAGAAGCAGAATTTGAACGCAAAATAAAGCGGAGGAAAGCGCGCTTGTTCAGTGCATGCGAAGAGGCGTTCGGACACATCAAAAGAGTGCAGTTGGAACGCGGTCCTTGTGTTCCAATGGATCCCGAAGAAACAGCACAATCACTGTTTCCTTCATTTGCAAGACCTCTTCAGAAATATCTCAGAACTGTTCGACTTCACCATCGTTACACAATGGATGGCATTATCAAACACCTTGCGCATTGCCTGACTTTTGATATGACACCCAAGGCGTTCTTAGAGCGTTACATAAACGAACAACCGTGTGTTGAGTTTACAACAAAACGTCGCACCCAGAGTTGGAGTTTAGTTTGCGAGGAACAAGTCACAAAAACGTTATCGTCGTCAACAGTTTTCCAACTGAAAGGCGACGATCTTTCTTTAATTGTTACTGTTCGCAGACTCCCGTATTTTGACATTTCAGAGGACGAGTTTGATTTTGAAAGCAACAAGTTTGTACTTCGATTAAATTCCGAAACATCCGTCTGAATTGAACTTTCATTGTCAAACAGAATGAACTAAATATTTTTGTAACTGTAATTTTGGGCTATTTCTTCTCAAGTGTGCTCTCCAAGAGAGGAACATACGTTTGCCTCGGTTAAGTTACGGACGTTGTTCACGATCGCGAGTTGTATGTTTATTTCATCATGAAATGTACAAtatattgtttttcttgttctttcaaTCTTCAAGTGGATTGTGACCACCTTTGTAATGTTTAGAATTCTCATTTCATTAGCTAGACGCAAGGATTTCTGGAACCATGTACTTGGTTCGCTCGTAGTGTACATATAAATGAGTTTTAGATTTGTAATATTAATGTTAACGGGCCAAAAGCTGTAGTCATTATTCACATAAACGCAGAATTGCTTTGACCTTAAATATTTTGCCATGTTCGACGTTTCGCCGTGATTTTTAGAAGTTGGTCTTGGTTCGTAAAGGACTTGGACGAAGTGCTCTTCCTCCAATTAATGGTTATCGCAACTGGATCGAGGCAAGAGAaaatatttatctttgttttctcttgatcGAGGTCATTTCCATTTCTTATTAAAGATCGAGAATAACTGTTACATTTAGGCTTCTCTAGTAGTGATAATGGCGTTTAAAAGctgagttaatttttttcaagagttAAAATTGCCGTGGGTTACTTTATTTGCGTTTTATCTTTTTAGTTGTAAATGCCTGATTGTTGTGGTCGCGAACGGGCTTAAAACTATGCATATAATTGTTGTGGTACTAATTTTCTCAAGCTGTTTATTTCTATCTGAATTGAACTGTCTGCTTCGTTCAAATACTTCAAACCAACCAGATACGattattgtttgtatttttcctATTACAAAACAACTATCAATCTGTTTTCAAATAAACTACACGATTAAAGAAAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q90Z05	Vang-like protein 2-B OS=Xenopus laevis OX=8355 GN=vangl2-b PE=1 SV=1
Q8TAA9	Vang-like protein 1 OS=Homo sapiens OX=9606 GN=VANGL1 PE=1 SV=1
Q90X64	Vang-like protein 2-A OS=Xenopus laevis OX=8355 GN=vangl2-a PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009093 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06638 all species →	Strabismus	Strabismus protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR009539 all species →	Family	Vang-like protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20886 all species →	VANG-LIKE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001736 all species →	Biological Process	establishment of planar polarity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007275 all species →	Biological Process	multicellular organism development	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0060071 all species →	Biological Process	Wnt signaling pathway, planar cell polarity pathway	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
K04510	VANGL; vang-like	-	Wnt signaling pathway	ko04310	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of XP_068734036.1 across 36 RNA-seq samples of Montipora capricornis. 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.

36Samples

30TPM > 0

1Conditions

97.1Max TPM

30.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	30	30.02	97.07

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550	97.07
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	68.89
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	52.48
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	52.33
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	47.36
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	44.12
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	42.04
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	41.78
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	40.05
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	38.98
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	37.69
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	37.24
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	36.51
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	36.36
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	36.02
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	35.79
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	34.67
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	33.78
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	33.60
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	33.12
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	30.07
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	23.42
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	23.32
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	21.39
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	21.36
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	20.49
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	19.52
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	14.30
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	14.12
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	12.78
SRR12807381	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12849113	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12927880	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR12963484	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR9129316	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00
SRR9613519	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00

Source: CnidoSite RNA-seq expression matrices (MCAPR_TPM, StringTie quantification over 36 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.