Gene detail

Detailed information of XP_068731534.1 in Montipora capricornis

Genomic Location: chr1:22815198...22855647
NR annotation: XP_044178748.1, vacuolar protein sorting-associated protein 16 homolog [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC138027784

ATGGCTCACGTTACCGTAGACTGGAATCCCTTAGGAAAGGTGTTCTATAGAAAGGTGGAGCTTTATAGCATGGCCTGGCAAGATGCTGTGGATCTGTCTAAATTTGTTGTAAGTTCAGCAGCATTTGGAGGTCCTATAGCTCTAATGCGAGATGACAAGCAGTTTGTTAGAGTCCAAGGGTCAGCTATTAATAAACCTGTCATTCACATTTTTTCTTCTGCTGGGAAAGAACTTGCTACAGTTAAGTGGGATGGAAGTCCAATAGTTCAAATGGGGTGGTCCATCACAGAGGACCTGTTGTGCATGGCTAGTGATGGCAGTGTGTCAATTTATGACATGCATGGTGCAATTAAAAAAACTGTATCAATGGGACAGGATGCCAAAGAGTCAAAGGTTATTGATTGTAAAATTTACAACTTTGCTGGAAGAACTGGCATAGCTATCTTAACTGGAAGTTATCATTTTTACGTCACCAGCAGTGTGGAGGAAGTTGGAAGTCGACGATTCTATGATCCTCCAGGTTTGGATGCCCCGCCCAGCAGCTGGGTCATTTTGCCATACGACAGGGGCTCGTCATTATTGATAGCAATTGATAATTTATTGTACCTCACGGACAAGGGTCAGTGCAGTATGCAGAACGTAACGTTCCATGAAGGAGGTCCGGTGACATCTATAATAGAGATGGCGATATCTCATAACTACGAGTACCTGGCAATGTTTACTGATACTGGACTATTGTGGATAGGATCAGCCGACTTACAGAAAGTGTACTGTGAGTTCAACACTGCTTGTCCATCCAGACCCAAACAGCTTGCATGGTGTGCAATGGGAGCTGTTATCTGTTACTGGGAGGATTATATAGATGTTGTGGGACCAACTAAGGACACCGTAAGATATCAAATGGATAGCGCAGTTCATCTGGTCCAGGAACTGGACGGTGTAAGGATCATTGGTAACGAGACACACGAGCTACTTCAGCGAGTACCAGCTGCTGTGGAGCAGGTGTTCAAGATTGGATCCATGGAGCCTGGCGCTATGCTGTTTGATGCTTCCAAGGAATTTGAGAAAAAAAGTGCAAGAGCAGAGGAATACATACGCATGATCAAAGAACGCCTTCCTGAAGCTGTCCAGCAATGCATTCATGCAGCTGCGGGTGAATATGAACCTGCGATACAGAGGAGCCTTTTGCGAGCTGCATCATTTGGCAAGAGTTTTCTGACTGACATGGCTCCTCATGCGTTTGTGTCAATGTGTCGAAATCTACGAGTGCTGAACGCTGTCCGAGACTTCACAGTCGGCATACCACTCACATACGGACAATTGGAAAAGCTTACGATGAAAACCTTGATCGATCGACTGGTGCTAAGGCGACACTACTGTCTGGCCATCCGGATTTGTGATTACCTCAAGATTCCCAAAGGGGAGGGAGCAAGTCGCATTCTTGGACATTGGGCTTGCTATAAGGTTCAGCAAGCCAACGTTGATGATGAAGAGATCGCTCGCGCCATCAACTCTAAGCTTGGAGAGACTCCTGGGATATCGTACTCAGAGATCGCTTCTAAGGCAATTGACTGCGGGAGAACACATCTTGCTATCAAGTTGCTTGATTATGAAGCAAAGGCCGCTGACCAAGTTCCACTGCTCATGCGCATGGACAAAGATGACCTGGCATTGGAGAAAGCCATTATGAGTGGGGATACAGATTTAGTTTACATGGTTGTGATGCACCTGAAAGATAATTTGACTCTTGGCGAGTTCTTGATGGCCATACGTTACCGTCCTGTGGCCCTTAAGCTATACATCAAGTATTGTAAGGATCAAGATCGCCGCACTCTTGTGGACTTGTTCTATCAGGATGATCAATTTCTAAACAGTGGAAACGCCTTTGTACAAGACAGCTACGATGAGAGGACGCTGGAGGCCAAATTGAAAACACTATCCAAAGCACAGATGTCGTACCAGCAGGGAGGCTTCCAGTTTTATGCAAAGGCAGCAGAAGAACAAATCAAACTAATGGATTATCAGGAAAAACTGGAGGAAAAATACAGAAAAACATTTCTGGATAGTTCCCTAAGTGATACCATCTACCAGTGCGTGCTTGAAGGGGACCTAAAAGTTGCTGAGCAACTGAAGAAGGAATTTAAAGTCCCGGATAAAAGATTCTACTGGTTGAAAGTCAGAGCGCTGGCCGAGAGTCACAATTGGCTGGAACTCGATAAATTCTCTAAGTCGCGCAAATCCTTGATAGGATACGAGCCATTTTTTGAGGCTTGTCTGGAATTTAACAGCAGAGTCGAAGCAGAGAAGTACGTCTCTCGAGTTCTCCCTGAGAACAAAGTGGCTTGTTATGCCAAACTCGGGAAATACGAAGATGCTGCGGAGACCGCTTTTGCTCAGAAAAGCGAGGAGGGTCTGGATCTAGTGCTTGGGAAATGTTCGAATTCAAATCGTCCTCTTGTCAACCGCATTCAAGAGATGAAGGGTCATCTTCGTCAACGGCGATAA

Transcript

rna-XM_068875433.1

ACCCAGTACAACAAAAGATGTCGTATATAAAGCGTTTAACGTTAAAAACATGGCGGACGCAGAACCTTCCATAAATCCCTAACAAAGTAACATCTGTTAAAAAGAATGGCTCACGTTACCGTAGACTGGAATCCCTTAGGAAAGGTGTTCTATAGAAAGGTGGAGCTTTATAGCATGGCCTGGCAAGATGCTGTGGATCTGTCTAAATTTGTTGTAAGTTCAGCAGCATTTGGAGGTCCTATAGCTCTAATGCGAGATGACAAGCAGTTTGTTAGAGTCCAAGGGTCAGCTATTAATAAACCTGTCATTCACATTTTTTCTTCTGCTGGGAAAGAACTTGCTACAGTTAAGTGGGATGGAAGTCCAATAGTTCAAATGGGGTGGTCCATCACAGAGGACCTGTTGTGCATGGCTAGTGATGGCAGTGTGTCAATTTATGACATGCATggtgcaattaaaaaaactgTATCAATGGGACAGGATGCCAAAGAGTCAAAGGTTATTGattgtaaaatttacaactttgcTGGAAGAACTGGCATAGCTATCTTAACTggaagttatcatttttacgTCACCAGCAGTGTGGAGGAAGTTGGAAGTCGACGATTCTATGATCCTCCAGGTTTGGATGCCCCGCCCAGCAGCTGGGTCATTTTGCCATACGACAGGGGCTCGTCATTATTGATAGCAATTGATAATTTATTGTACCTCACGGACAAGGGTCAGTGCAGTATGCAGAACGTAACGTTCCATGAAGGAGGTCCGGTGACATCTATAATAGAGATGGCGATATCTCATAACTACGAGTACCTGGCAATGTTTACTGATACTGGACTATTGTGGATAGGATCAGCCGACTTACAGAAAGTGTACTGTGAGTTCAACACTGCTTGTCCATCCAGACCCAAACAGCTTGCATGGTGTGCAATGGGAGCTGTTATCTGTTACTGGGAGGATTATATAGATGTTGTGGGACCAACTAAGGACACCGTAAGATATCAAATGGATAGCGCAGTTCATCTGGTCCAGGAACTGGACGGTGTAAGGATCATTGGTAACGAGACACACGAGCTACTTCAGCGAGTACCAGCTGCTGTGGAGCAGGTGTTCAAGATTGGATCCATGGAGCCTGGCGCTATGCTGTTTGATGCTTCCAAGGAATTTGAGaaaaaaagtgcAAGAGCAGAGGAATACATACGCATGATCAAAGAACGCCTTCCTGAAGCTGTCCAGCAATGCATTCATGCAGCTGCGGGTGAATATGAACCTGCGATACAGAGGAGCCTTTTGCGAGCTGCATCATTTGGCAAGAGTTTTCTGACTGACATGGCTCCTCATGCGTTTGTGTCAATGTGTCGAAATCTACGAGTGCTGAACGCTGTCCGAGACTTCACAGTCGGCATACCACTCACATACGGACAattggaAAAGCTTACGATGAAAACCTTGATCGATCGACTGGTGCTAAGGCGACACTACTGTCTGGCCATCCGGATTTGTGATTACCTCAAGATTCCCAAAGGGGAGGGAGCAAGTCGCATTCTTGGACATTGGGCTTGCTATAAGGTTCAGCAAGCCAACGTTGATGATGAAGAGATCGCTCGCGCCATCAACTCTAAGCTTGGAGAGACTCCTGGGATATCGTACTCAGAGATCGCTTCTAAGGCAATTGACTGCGGGAGAACACATCTTGCTATCAAGTTGCTTGATTATGAAGCAAAGGCCGCTGACCAAGTTCCACTGCTCATGCGCATGGACAAAGATGACCTGGCATTGGAGAAAGCCATTATGAGTGGGGATACAGATTTAGtttacatGGTTGTGATGCACCTGAAAGATAATTTGACTCTTGGCGAGTTCTTGATGGCCATACGTTACCGTCCTGTGGCCCTTAAGCTATACATCAAGtattgtAAGGATCAAGATCGCCGCACTCTTGTGGACTTGTTCTATCAGGATGATCAATTTCTAAACAGTGGAAACGCCTTTGTACAAGACAGCTACGATGAGAGGACGCTGGAGGCCAAATTGAAAACACTATCCAAAGCACAGATGTCGTACCAGCAGGGAGGCTTCCAGTTTTATGCAAAGGCAGCAGAAGAACAAATCAAACTAATGGATTATCaggaaaaactggaggaaaaatacagaaaaacaTTTCTGGATAGTTCCCTAAGTGATACCATCTACCAGTGCGTGCTTGAAGGGGACCTAAAAGTTGCTGAGCAACTGAAGAAGGAATTTAAAGTCCCGGATAAAAGATTCTACTGGTTGAAAGTCAGAGCGCTGGCCGAGAGTCACAATTGGCTGGAACTCGATAAATTCTCTAAGTCGCGCAAATCCTTGATAGGATACGAGCCATTTTTTGAGGCTTGTCTGGAATTTAACAGCAGAGTCGAAGCAGAGAAGTACGTCTCTCGAGTTCTCCCTGAGAACAAAGTGGCTTGTTATGCCAAACTCGGGAAATACGAAGATGCTGCGGAGACCGCTTTTGCTCAGAAAAGCGAGGAGGGTCTGGATCTAGTGCTTGGGAAATGTTCGAATTCAAATCGTCCTCTTGTCAACCGCATTCAAGAGATGAAGGGTCATCTTCGTCAACGGCGATAAAGATCATCTTGCCAGCGTTTTCAAACTGTGATCTTCAATGGAATTTCGATCCACCAATTTTTAACCTATATGTGCCTTAGTAAACCAACCAATTGCGTGTGGGCGTCTTACCTCAAGATAATAGCCTGATTTTTCATGTCGAGGGCAAAATGCGGGAGGGAAGGTACAGCATCTTCTGCAATGTAACGCGGTGTAATGCGTGACACCCCAAGGAGACTAGAGCAGAACATCCAGCGGAATGATTGTGAACAAGAGTGAACTGATCAAATAAATGCAACAATAAATGCGACCAAATAAATGCAACAATTGGATGCAATCAGTGGAACACTAATGATCATTGTTTTAAATAACGCAAATTTGTATTGAGAGTAACAGGATTTAGTTACAATCTatcataaaattaaatttacaataaATAGTGTTTGGAAATATAGTTGTTAACAAGG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9H269	Vacuolar protein sorting-associated protein 16 homolog OS=Homo sapiens OX=9606 GN=VPS16 PE=1 SV=2
Q5E9L7	Vacuolar protein sorting-associated protein 16 homolog OS=Bos taurus OX=9913 GN=VPS16 PE=2 SV=1
Q920Q4	Vacuolar protein sorting-associated protein 16 homolog OS=Mus musculus OX=10090 GN=Vps16 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001418 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04841 all species →	Vps16_N	Vps16, N-terminal region	Repeat	Interproscan
PF04840 all species →	Vps16_C	Vps16, C-terminal region	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006926 all species →	Domain	Vps16, N-terminal	Interproscan
IPR006925 all species →	Domain	Vps16, C-terminal	Interproscan
IPR016534 all species →	Family	Vacuolar protein sorting-associated protein 16	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR038132 all species →	Homologous_superfamily	Vps16, C-terminal domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12811 all species →	VACUOLAR PROTEIN SORTING VPS16	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0007033 all species →	Biological Process	vacuole organization	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003779 all species →	Molecular Function	actin binding	Interproscan
GO:0005765 all species →	Cellular Component	lysosomal membrane	Interproscan
GO:0005768 all species →	Cellular Component	endosome	Interproscan
GO:0016197 all species →	Biological Process	endosomal transport	Interproscan
GO:0030897 all species →	Cellular Component	HOPS complex	Interproscan
GO:0042144 all species →	Biological Process	vacuole fusion, non-autophagic	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
K20180	VPS16; vacuolar protein sorting-associated protein 16	-	Membrane trafficking	ko04131	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_068731534.1 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

28TPM > 0

1Conditions

32.2Max TPM

13.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	28	13.33	32.19

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	32.19
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	32.18
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	24.45
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	23.13
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	21.83
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	20.91
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	20.79
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	20.48
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	19.86
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	19.83
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	19.69
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	19.69
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	18.96
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	18.72
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	18.05
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	17.15
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	16.07
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	15.81
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	14.56
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	13.27
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	10.94
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	10.75
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	10.58
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	9.48
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	8.86
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	8.39
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	6.94
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	6.25
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
SRR12959230	Polyps	Polyps	E3 day3	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.