Gene detail

Detailed information of XP_068723041.1 in Montipora capricornis

Genomic Location: chr2:35445344...35469391
NR annotation: XP_029187530.2, rab-like protein 6 isoform X2 [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC138019960

ATGTTATCAGCCTTCAAGAAGTGGGCAAAGGGCGGAAATGAAAACTCAAAGCTCAGTACTCCAATGGGTGTCCGAGCCATGGGCCAGGCATTACAAAGAAAGTTTGCTCGTGGCATTCAGTACAATTTGAAAATAGTAATTAAAGGGGATAGAAACACTGGAAAATCGTGTCTCTTTCAGAGACTCCAAGGAAAACCTTTCAGTGAACAGTATATTCCAACCAATGAGATTCAGGTTGCAAGTATTCACTGGAATTACAAAACTACAGACGATGTGGTGAAAGTTGAGGTGTGGGATGTTGTGGACAAGGGTAAAAGTAAGAAGTCATCTTCAAGTGGCCTTAAATTGGAGACTGACGAAAGAGAGAGCGAAAAAGATGAAAGTGTTTTAGATGCCGAATTTGTTGATGTGTATAAAGGGGCTCACGGTGTGTTGTTGGTCATGGACATCACAAAACCTTGGACGTTTAAGTACGTTGAGAGGGAGCTTGGCAAGGTTCCACCACACTTGCCTGTCTTGGTTCTGGCGAACCACCGTGACATGGGAGAACATAGATTAGTCCAAACAGACGAAGCTGTTGCAGTGATTGAGCATTTAGAGAGGCCAGACAGATCCCCTCCAGTACACTACGCAGAGACCTCCATGAAGAATGGCTTTGGTCTCAAATACATTCACAAGTTTCTCAATTTACCATTTCTGTTGCTTCAGAGAGAAACCCTTCTGAAGCAGCTGCAAGTAAATGCTGAAGACACCGAGTCTACGCTGGAAGAACTTCAGATTCATAAAGAGACTGAAGAACAGGACTATGAGAAGTTTGTTCGCATGCTAGAGAAGAGACGAAAAGACCATCACGCCAGGAAGGCAGCAGCGTCAGCGGAGGGTGGCGATGCAATGGAAAGCGGCGCTACCTCTCTTGCCACACCTCATACCGGTGCCATCGTTGAAGCAACAGAAAAAAGAGCTGACAACAAGGAATCCAGCCAAGGAAACACCACTGCAAGGAAAGAGCTCAGACAGGAAGCGGTTTCAAAGAATGGACCAGTGCATTCTTCGGCTGACATTGACGAGTTTATGCCTGACGATGAAATGGACGCGGGATTTTTAGACGAGGACAAGCCTGGAAGCGGAAAGAGAACAAATAATTCAGCGGCGAAGAAGCTGCCAGCGAAAGTCGAAGTGATGCAAGGTGGCATTGAGGAAAGCGATAGTGATAGTGAAACAAGGAACCCTATGGTGGCAGGATTTGCTGAGGACATCGACTCTGATGATGAGACAGCGGTCTCGGCGGCAATGACCAACCACGTTGAAGATTTCAACATGAAAAATCCTTTAAGAACAGTTACTAAACCTTCTGCGGTTGTTACCGTAAACTTGACCTCGAGCGAAGAGGAAGAGGAAGAAGAGAAAAGCGACGAGGAGCCAAAGGGAAACGAAAGTAAAAAAATGGAAAACGAGGATAAAAGAACCGAGATCAAGGAATTCAAGAAGGAACCTCCAAGCAATGGTTTAAAGATGAATCTGAAAATGCCAGACAGTGCATCAACGACGCAAACAACTATCGATAGCTTTAGTCCTATCAAAGCAGACGTCGATGATTGGCTAAATTCGCCTGATACAGATCCCAAGGTTTCACCCATCGAAAGAGAGTTAACAGAGGGCAGAAAGACTAGCACTCCTTCTCAAGCATCTTCGTCGTTAGCAACGGACATTGCTGAGGACGAGTGGGAAAGGTTCATGACTTCACAGATGCAACCCCAGTCCAAAAGAACTAGAGCTGCACCCGATTCGTTAATGGACATGAATTTCGACGAGGAGGACAACGTTAATGGAGATGAAGAAAGTAAAAGCCGTAAGAAGAAGGAACAAAGGAGTGGCGAGAAATCGAAAAGCAAACACAAGCATCGAAAGCACAAAGACAAAACTGAAGAAAATGAAGCGGAGGGCGACAAAAAAGAAAGAAGGAAGTCGTCACGTCAGAAAGACGGCGATGAAGGAAAAGAAAAGAAAAAAAGCAAGGACGACGAAGGAGAAAAGAAGAAGAAACGGCGTAGTAAACATAATCGTTCAAAGGATGAAAAGGGCGATGAGGAGGGAGTAACGTATGAAGAGCTTTGA

Transcript

rna-XM_068866940.1

GAGTAGCCGCGCCACTCTTATGGTCAATACACCGAATGTCACTGAAAGAAATCGATTGTGCAAGCATTGAGCATCGTTTGAATGTTCAGCATTTGTCCCTTTGACATGGATCAAGACTCTTGACCAGTTGAGAAGCATAAAGTAGGCTATTCGCCTCCTTTTCGCCATGTTATCAGCCTTCAAGAAGTGGGCAAAGGGCGGAAATGAAAACTCAAAGCTCAGTACTCCAATGGGTGTCCGAGCCATGGGCCAGgcattacaaagaaagtttgcTCGTGGCATTCAGTACAATTTGAAAATAGTAATTAAAGGGGATAGAAACACTGGAAAATCGTGTCTCTTTCAGAGACTCCAAGGAAAACCTTTCAGTGAACAGTATATTCCAACCAATGAGATTCAGGTTGCAAGTATTCACTGGAATTACAAAACTACAGACGATGTGGTGAAAGTTGAGGTGTGGGATGTTGTGGACAAGGGTAAAAGTAAGAAGTCATCTTCAAGTGGCCTTAAATTGGAGACTGACGAAAGAGAGAGCGAAAAAGATGAAAGTGTTTTAGATGCCGAATTTGTTGATGTGTATAAAGGGGCTCACGGTGTGTTGTTGGTCATGGACATCACAAAACCTTGGACGTTTAAGTACGTTGAGAGGGAGCTTGGCAAGGTTCCACCACACTTGCCTGTCTTGGTTCTGGCGAACCACCGTGACATGGGAGAACATAGATTAGTCCAAACAGACGAAGCTGTTGCAGTGATTGAGCATTTAGAGAGGCCAGACAGATCCCCTCCAGTACACTACGCAGAGACCTCCATGAAGAATGGCTTTGGTCTCAAATACATTCACAAGTTTCTCAATTTACCATTTCTGTTGCTTCAGAGAGAAACCCTTCTGAAGCAGCTGCAAGTAAATGCTGAAGACACCGAGTCTACGCTGGAAGAACTTCAGATTCATAAAGAGACTGAAGAACAGGACTATGAGAAGTTTGTTCGCATGCTAGAGAAGAGACGAAAAGACCATCACGCCAGGAAGGCAGCAGCGTCAGCGGAGGGTGGCGATGCAATGGAAAGCGGCGCTACCTCTCTTGCCACACCTCATACCGGTGCCATCGTTGAAGCAACAGAAAAAAGAGCTGACAACAAGGAATCCAGCCAAGGAAACACCACTGCAAGGAAAGAGCTCAGACAGGAAGCGGTTTCAAAGAATGGACCAGTGCATTCTTCGGCTGACATTGACGAGTTTATGCCTGACGATGAAATGGACGCGGGATTTTTAGACGAGGACAAGCCTGGAAGCGGAAAGAGAACAAATAATTCAGCGGCGAAGAAGCTGCCAGCGAAAGTCGAAGTGATGCAAGGTGGCATTGAGGAAAGCGATAGTGATAGTGAAACAAGGAACCCTATGGTGGCAGGATTTGCTGAGGACATCGACTCTGATGATGAGACAGCGGTCTCGGCGGCAATGACCAACCACGTTGAAGATTTCAACATGAAAAATCCTTTAAGAACAGTTACTAAACCTTCTGCGGTTGTTACCGTAAACTTGACCTCGAgcgaagaggaagaggaagaagagaAAAGCGACGAGGAGCCAAAGGGaaacgaaagtaaaaaaatggaaaacgaGGATAAAAGAACCGAGATCAAGGAATTCAAGAAGGAACCTCCAAGCAATGGTTTAAAGATGAATCTGAAAATGCCAGACAGTGCATCAACGACGCAAACAACTATCGATAGCTTTAGTCCTATCAAAGCAGACGTCGATGATTGGCTAAATTCGCCTGATACAGATCCCAAGGTTTCACCCATCGAAAGAGAGTTAACAGAGGGCAGAAAGACTAGCACTCCTTCTCAAGCATCTTCGTCGTTAGCAACGGACATTGCTGAGGACGAGTGGGAAAGGTTCATGACTTCACAGATGCAACCCCAGTCCAAAAGAACTAGAGCTGcacccGATTCGTTAATGGACATGAATTTCGACGAGGAGGACAACGTTAATGGAGATGAAGAAAGTAAAAGCCGTAAGAAGAAGGAACAAAGGAGTGGCGAGAAATCGAAAAGCAAACACAAGCATCGAaagcacaaagacaaaactgAAGAAAATGAAGCGGAGGGcgacaaaaaagaaagaaggaagtCGTCACGTCAGAAAGACGGCgatgaaggaaaagaaaagaaaaaaagcaaggacgacgaaggagaaaagaagaagaaacggCGTAGTAAACATAATCGTTCAAAGGATGAAAAGGGCGATGAGGAGGGAGTAACGTATGAAGAGCTTTGACAGAGAGTTGCGTGACGCGACATCGTCTTTAATGCTTGCGTGACTGATTCTCAACTGCTGCGCCTTGCGCGTGTAACATGAAATTTAGCTGGCGATTTATGTTGCAGTGAGGTTGTGAATTGACTCGAATGTGATTATGAacgaaagaaaacaagcaaactgGCACACAAACAAACACagatattaaatattcaaatacaGACCGTGCGTCGGTCAAAATGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q08DA0	Rab-like protein 6 OS=Bos taurus OX=9913 GN=RABL6 PE=2 SV=1
Q5U3K5	Rab-like protein 6 OS=Mus musculus OX=10090 GN=Rabl6 PE=1 SV=2
Q3YEC7	Rab-like protein 6 OS=Homo sapiens OX=9606 GN=RABL6 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003730 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00071 all species →	Ras	Ras family	Domain	Interproscan
PF08477 all species →	Roc	Ras of Complex, Roc, domain of DAPkinase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR040385 all species →	Family	Rab-like protein 6	Interproscan
IPR001806 all species →	Family	Small GTPase	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14932 all species →	RAS GTPASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0003924 all species →	Molecular Function	GTPase activity	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_068723041.1.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_068723041.1 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

29TPM > 0

1Conditions

83.7Max TPM

23.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	29	23.10	83.71

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	83.71
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	62.15
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	61.73
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	38.53
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	37.83
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	37.59
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	35.21
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	32.92
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	30.55
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	25.72
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	25.20
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	25.13
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	23.92
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	23.56
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	23.51
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	23.21
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	22.07
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	21.72
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	21.50
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	20.88
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	20.82
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	18.48
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	18.47
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	17.80
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	17.08
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	16.29
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	16.05
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	15.78
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	14.18
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
SRR27940192	Polyps	Polyps	not recorded	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.