Gene detail

Detailed information of XP_068752385.1 in Montipora capricornis

Genomic Location: chr1:9222606...9290412
NR annotation: XP_029199507.1, LOW QUALITY PROTEIN: integrin beta-1 [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC138049731

ATGAGGAGACTCTGCCTGTCGTTCTGCGCTACATTTTGGGTCTTATTTTTGGGCGTCAGTGATGTAGGCGCACTTGAGTGTAGATTAATAGAATCATGTGGGAAGTGTATTCAAAATGTTAACCCACCATGTTCCTGGTGTGAAGATGAAGTGTATGTTTGGCTGGAGCAGCCAAGGGACAGATGTGACTCTCTCAGTAACCACACCAGAAATAGATGTCAGAAAATAGCCAATCCCTCATCTCGTATTGTCACCCATGAGGATAAGCTACTTGATCCAGATGTTAAAGTGAAACCACAGAATGTAACACTGTCACTTAGACCTGGTCAACCAGCTACTGTCAAGGTAGATGTGAAGATGCCAGAAAATTACCCAGTTGATTTGTATTATCTGATGGATTTATCTGGGTCCATGGTGGAAGATCTTAAGAAGTTTCCAGCTCTTGGTCAAAGTATAGCACTAGAGATGAAAAACATAACAAGAAATTTTCGTCTTGGTTTTGGTGGATTTGTGGACAAGCCTCTGGCTCCATATATTGATACTCATCCTGACAGCAACTCTAAGACTGTCCGAGCATTTGGGTTCAGGAACCAGTTAGGTTTGACAGGGAACTTCAATGAGTTTCAAAGTACAGTACAGCGAGTTAATATTTCAGTAAATGTTGACAATCCTGAGGGAACTTTGGATGCATTGATGCAAATAGCTGTCTGTGATAAGGAAATTGGATGGAAGGACAAGCAGTCAGCCAGGAGATTAGTTATTGTAATTACAGATGCCAGTTATCATTTTGCTGGAGATGGATTGCTTGGTGGAGTTGTGAAGCCAAATGATGGACACTGTTACACCAAGAATGGCATATATACGGCATCAACAACAATGGACTATCCATCTCCAGGTTTTCTGAAGAAAATATTAATAGATGAGCAAGTGTCTCCAATCTTTGCTATCAACCAAGCCAAACTAGATGTATATAGCCAGTACAAGGAATTAGTCACATTTTTTGGAAGTGAGTCAGGAGCTGTGGCAGAGTTGTTACGTGAGGATTCATCTAACATTGTTCAGCTTATCAGACAAGCGTATGAGAAAATTGCTCAAACACAGACAATTCGTGACACAGCACCTGAAGGAGTCAAAGTTAATTTCACAGCTTACTGTCCAAATGGGAAGCAGGTTGGATCAAGAACATGTACAGGTGTTCAAATTGGGCAAGAGGTGTCCTTTGAGGTCTCTGTGACTGTGGAAGATTGTAATGTGAAGGATAAAGTGTTCTCTCTGATCACTCCTTTTGGAAATGTTGAGATAAACTTGGATTTCATTTGTAGCTGTCAGTGTGAGAAGGATGCACAAACAGTAAAATCCAGTCCACGTTGTTCTTTTAATGGCACCCTCAAGTGTGGTCAGTGTGTTTGTGATCAAGGATGGGCTGGAAGAAAATGTCAGTGTACAGAGGAATCTAAACTTAAACCCAACCAATGCATTAAATTGAATCAAACTGCTTTCAAGTTTCACAATACAAACACAACGGTGCTGGACAATACAACTGAAGCCCAAGAGTGTAATGGAGAAGGGACATGTTTGTGTGGAGACTGTGTGTGCAAAAAAGATGGGCTTCTTCCTGGTGAAATTATCAATGGCAAATATTGTGAATGCAGCAATATGGATTGTCCAAGGGATCCAGATACCGACCTCATATGTGGCGGTCTTGAGCGCGGTGAATGCGTGTGTGGCAACTGCAATTGCTCTGGTAACTGGACTGGCCCATCGTGCAGCTGCACAAAGAGAACGGATAGCTGCTTCAAAGACGGAGTTTTGTGTAATGGCTATGGCACATGCGAGTGTGGCAACTGCGTTTGCAATGCCTCGACTCCTTACAGAGGAAAGTACTGTGATGAATGCCCGAGCTGTGTGGGAAAATGCTCTCAAAACAAAGCTTGCGTACAGTGCCTTGTGTTTAAGAGCGGACAGTTGAGTTCCGATCAATGCAAGTCTCGCTGCAAGGATTTCAAAATCGCTGAAGTGGATGAACTTAGCCCAGAAATGGGAGAGAGGTGCACCTTCAGGGATGATGATGATTGCTCGTTTACCTTTAGTTACAAAGAAAATCCAGGCAAAGATATCGAAATATCCGTTCAGAGGGAGAAAGCTTGTCCGAAGGAAGCAGAAGCACTTGCTGTTATTCTTGGCGTTGTTGGAGGAGTGCTGGGCGTGGGGCTAGCCCTGCTCCTTATTTGGAAATTACTCGCCACAATTCAGGACCGACGAGAATTTGCCAAGTTTGACAAGGAGAGACAAAACGCTCAGTGGGACACGGGAGAGAACCCCATCTTCAAGCAAGCAACAACAACATTCCAGAATCCGACATATGGTGGCAAATAA

Transcript

rna-XM_068896284.1

ATTGCGACGCGTATGAGAATACTAATATCGTGTGAGTGAAAGATCAGATGGGTTTATATCCGTTAAATCCTGTCTGTCTTAGGAAGGTGTGAAGTCTCTATTTGTGAGAACTTCAAAACTTACCACTATCTTGGAGTGGGTGCGAGACTAAACTGAGCTTACTTGAAGCGTAACGACCagatttgttttatttctcTCCCGGAAAGGGAGATATGGTTTTATGGGAGACGCCCGCGTCTAGATTGAGTCTGCTCGCTTAATTGTAAAGGAAAAGACAATATAGGTAACCATAGAAACAATGAGGAGACTCTGCCTGTCGTTCTGCGCTACATTTTGGGTCTTATTTTTGGGCGTCAGTGATGTAGGCGCACTTGAGTGTAGATTAATAGAATCATGTGGGAAGTGTATTCAAAATGTTAACCCACCATGTTCCTGGTGTGAAGATGAAGTGTATGTTTGGCTGGAGCAGCCAAGGGACAGATGTGACTCTCTCAGTAACCACACCAGAAATAGATGTCAGAAAATAGCCAATCCCTCATCTCGTATTGTCACCCATGAGGATAAGCTACTTGATCCAGATGTTAAAGTGAAACCACAGAATGTAACACTGTCACTTAGACCTGgtcAACCAGCTACTGTCAAGGTAGATGTGAAGATGCCAGAAAATTACCCAGTTGATTTGTATTATCTGATGGATTTATCTGGGTCCATGGTGGAAGATCTTAAGAAGTTTCCAGCTCTTGGTCAAAGTATAGCACTAGAGATGAAAAACATAACAAGAAATTTTCGTCTTGGTTTTGGTGGATTTGTGGACAAGCCTCTGGCTCCATATATTGATACTCATCCTGACAGCAACTCTAAGACTGTCCGAGCATTTGGGTTCAGGAACCAGTTAGGTTTGACAGGGAACTTCAATGAGTTTCAAAGTACAGTACAGCGAGTTAATATTTCAGTAAATGTTGACAATCCTGAGGGAACTTTGGATGCATTGATGCAAATAGCTGTCTGTGATAAGGAAATTGGATGGAAGGACAAGCAGTCAGCCAGGAGATTAGTTATTGTAATTACAGATGCCAGTTATCATTTTGCTGGAGATGGATTGCTTGGTGGAGTTGTGAAGCCAAATGATGGACACTGTTACACCAAGAATGGCATATATACGGCATCAACAACAATGGACTATCCATCTCCAGGTTTTCTGAAGAAAATATTAATAGATGAGCAAGTGTCTCCAATCTTTGCTATCAACCAAGCCAAACTAGATGTATATAGCCAGTACAAGGAATTAGTCACATTTTTTGGAAGTGAGTCAGGAGCTGTGGCAGAGTTGTTACGTGAGGATTCATCTAACATTGTTCAGCTTATCAGACAAGCGTATGAGaaaattgCTCAAACACAGACAATTCGTGACACAGCACCTGAAGGAGTCAAAGTTAATTTCACAGCTTACTGTCCaaatgGGAAGCAGGTTGGATCAAGAACATGTACAGGTGTTCAAATTGGGCAAGAGGTGTCCTTTGAGGTCTCTGTGACTGTGGAAGATTGTAATGTGAAGGATAAAGTGTTCTCTCTGATCACTCCTTTTGGAAATGTTGAGATAAACTTGGATTTCATTTGTAGCTGTCAGTGTGAGAAGGATGCACAAACAGTAAAATCCAGTCCACGTTGTTCTTTTAATGGCACCCTCAAGTGTGGTCAGTGTGTTTGTGATCAAGGATGGGCTGGAAGAAAATGTCAGTGTACAGAGGAATCTAAACTTAAACCCAACCAATGCATTAAATTGAATCAAACTGCTTTCAAGTTTCACAATACAAACACAACGGTGCTGGACAATACAACTGAAGCCCAAGAGTGTAATGGAGAAGGGACATGTTTGTGTGGAGACTGTGTGTGCAAAAAAGATGGGCTTCTTCCTGGTGAAATTATCAATGGCAAATATTGTGAATGCAGCAATATGGATTGTCCAAGGGATCCAGATACCGACCTCATATGTGGCGGTCTTGAGCGCGGTGAATGCGTGTGTGGCAACTGCAATTGCTCTGGTAACTGGACTGGCCCATCGTGCAGCTGCACAAAGAGAACGGATAGCTGCTTCAAAGACGGAGTTTTGTGTAATGGCTATGGCACATGCGAGTGTGGCAACTGCGTTTGCAATGCCTCGACTCCTTACAGAGGAAAGTACTGTGATGAATGCCCGaGCTGTGTGGGAAAATGCTCTCAAAACAAAGCTTGCGTACAGTGCCTTGTGTTTAAGAGCGGACAGTTGAGTTCCGATCAATGCAAGTCTCGCTGCAAGGATTTCAAAATCGCTGAAGTGGATGAACTTAGCCCAGAAATGGGAGAGAGGTGCACCTTCAGGGATGATGATGATTGCTCGTTTACCTTTAGTTACAAAGAAAATCCAGGCAAAGATATCGAAATATCCGTTCAGAGGGAGAAAGCTTGTCCGAAGGAAGCAGAAGCACTTGCTGTTATTCTTGGCGTTGTTGGAGGAGTGCTGGGCGTGGGGCTAGCCCTGCTCCTTATTTGGAAATTACTCGCCACAATTCAGGACCGACGAGAATTTGCCAAGTTTGACAAGGAGAGACAAAACGCTCAGTGGGACACGGGAGAGAACCCCATCTTCAAGCAAGCAACAACAACATTCCAGAATCCGACATATGGTGGCAAATAAGCCTATTGTAGATGTTAGAGCGGCTGCATACAGCTGGTAGCACTCTTACAGTGTTATGGTCAGCAGTGGAATCACTCTGCGACAGATTCTGCGATTGGGAATCGTTCACTGATCGATTAGaactttgaaaaacttgagTACAACTGAGCAACTCATTTTAAAATGCCTTGTAGACGCtgttgttttattgaaaatatgAAGACTGCTTTCATTGTCCACGAAGAGGTCAAATCACGAGAATGCAGATTCCAGCCCTTTAAAACGTCATGTACTTTTTTGATCAGATTCTCAGTTCATTTGTATTTATGGGtgtttaaaaataacttaaaatacAATTTAGATTTAGAATTTAAGATAAATtgcttttaaccaatcataacaACCCTTATTGGAAGGTATTTTACAgatattttcaagtttttatgaAATTTCAACAAGCTTTGCCTGCGGTAGTTAGTATGTTAACCCTTAGATTGGCCTTAGATTTGGGTCCTAACGACCTTAAGTTCTCGCTGCAACTGCTCTTTTTACAACAAAAGTGCGTTTTATTTCTTCGATATTTAAAGAGGAGTGCCGTTCGCAAACTTAATTACTTGCCGTaaaacaaatttgatcattGTTATCTTGTGGTTTATTGTTTACGTTGTGTGTGCATGTATCTGTTTTGGATACGAACTGATTTACCATTAAATAGAGATTTTAAATTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P12606	Integrin beta-1-A OS=Xenopus laevis OX=8355 GN=itgb1-a PE=2 SV=1
P12607	Integrin beta-1-B OS=Xenopus laevis OX=8355 GN=itgb1-b PE=2 SV=1
P07228	Integrin beta-1 OS=Gallus gallus OX=9031 GN=ITGB1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000809 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07965 all species →	Integrin_B_tail	Integrin beta tail domain	Domain	Interproscan
PF08725 all species →	Integrin_b_cyt	Integrin beta cytoplasmic domain	Domain	Interproscan
PF18372 all species →	I-EGF_1	Integrin beta epidermal growth factor like domain 1	Domain	Interproscan
PF00362 all species →	Integrin_beta	Integrin beta chain VWA domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012896 all species →	Domain	Integrin beta subunit, tail	Interproscan
IPR036465 all species →	Homologous_superfamily	von Willebrand factor A-like domain superfamily	Interproscan
IPR015812 all species →	Family	Integrin beta subunit	Interproscan
IPR036349 all species →	Homologous_superfamily	Integrin beta tail domain superfamily	Interproscan
IPR014836 all species →	Domain	Integrin beta subunit, cytoplasmic domain	Interproscan
IPR032695 all species →	Homologous_superfamily	Integrin domain superfamily	Interproscan
IPR040622 all species →	Domain	Integrin beta, epidermal growth factor-like domain 1	Interproscan
IPR002369 all species →	Domain	Integrin beta subunit, VWA domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10082 all species →	INTEGRIN BETA SUBUNIT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005178 all species →	Molecular Function	integrin binding	Interproscan
GO:0005925 all species →	Cellular Component	focal adhesion	Interproscan
GO:0007160 all species →	Biological Process	cell-matrix adhesion	Interproscan
GO:0007229 all species →	Biological Process	integrin-mediated signaling pathway	Interproscan
GO:0008305 all species →	Cellular Component	integrin complex	Interproscan
GO:0009986 all species →	Cellular Component	cell surface	Interproscan
GO:0016477 all species →	Biological Process	cell migration	Interproscan
GO:0033627 all species →	Biological Process	cell adhesion mediated by integrin	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_068752385.1.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_068752385.1 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

31TPM > 0

1Conditions

1,525.9Max TPM

124.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	31	124.35	1,525.95

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR9613519	Polyps	Polyps	not recorded	not recorded	SRP199550	1,525.95
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	149.32
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	142.27
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	138.17
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	137.92
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	136.22
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	134.63
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	131.29
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	129.49
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	128.09
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	127.54
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	124.75
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	123.35
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	122.09
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	121.00
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550	119.21
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	108.64
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	105.78
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	99.34
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	98.87
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	98.79
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	78.34
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	64.78
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	64.34
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	62.57
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	37.76
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	35.20
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	34.54
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	32.92
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	32.64
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	30.68
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

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.