Gene detail

Detailed information of XP_068730192.1 in Montipora capricornis

Genomic Location: chr12:36423550...36443609
NR annotation: XP_029195400.2, DDB1- and CUL4-associated factor 5-like [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC138026653

ATGTCACTGTGTAATGTGTGCGCTCGTCGGAACAGGAGATCGTATCTTTCAAGCTTTCCCAAGTGTCAGACCTTGGCAGAAACGTATGGATGTCCCATGGTGCGCAAGAGTTACTTCTCAGATCACTTTGGTCGCTGTCCTGGTCTTCACCGTAGAGATTTAGTGGGTCATTTTGGTTGTGTTAATGCCGTCGAATTCTCTAACAATGGAGGGGAATTCATTGTATCAGGTGGTGATGATCGCCGTGTCATGGTTTGGAATGTTGAAAAATGTGTTTATGGAAGTGGAACACCAGTCAGTTTGAAAGGAGAGCACAAATCTAACATATTCTGCACAGTGTTCGATAACGAAAACAGACACCTTTTTTCAGCAGGTAATGATAATATGGCTCTGCGGCACGACTTTGAGACTGGTGAAACAGTTGGCATGTACTACCATGATGACCCAGTTTATGGACTTCATGTCCATCCAGAAGATAGCAATGCCTTCCTTACAGCTTCTGATGATGGAAAAGTGTTGTTGTGGGATATAAGGGCTTCTTCAGTTCGAGGTTCATCAAGTTGTGTTGCTAATCTTGAATCAGCTTTCCATGCTGCTGTTTTTAATCCAGTGGATTATAATGTAATTGCTACTGCCAACTCCAAAAAGGGTGTACAGCTGTGGGATATCAGAGTACCCATAAGCTGTTTGAAGCAGTTTAGTTGTGACATCGGTCAAATGTGTGCCATGGGACTAAAGTGGAACACCACAGGTGACATGATAACAGCTCTTCGTCGCCGCCTCCCTCCTGTTTTGTACCATGTGAAACGCTCTTCTCCAATTGCCCAGTTTCACCATCCTGGCTACAGCAATGTGTGCACTATGAAGAGCAACTGTTTTGCAGGAAGTAAAGATCAGTATGTCGTATCTGGCTCTGATGACTTCAATGTGTACATTTGGGAAGTTCCAAATGACTGGGATGATGGAGGTCTGTTGATAACAGTTGGAAGAGCATTCCTGGTGCTTCAAGGCCATCGCTCCATTGTTAATCAAGTTCGTTTTAACCGCGCTAACCACATGCTTATATCAGCAGGTGTAGAAAAAGTCCTCAAGGTATGGAGTCCTTTCCCGGTTCCAGGAGGATGCAGTAGCACAGATGTTATTCCCGGAAATGTACGTCAGCCTTATTCGCATAGTGACTATCTTGGTTTCATCCAGTATGGTGGCCTCCCTTTGTCTCACGATGAATATGAAAACAGATCAACTGAAGAAGACCCACGCATGCTAGCCTTCTTTGATTCTCTTATTGAGCGTGAGAAAGAGAACTTTTGCTCTGACTCAGATGATAGCACGTGGGAGGATTTACACCTCAGTCTTATCCTTCAAGGCGGAAGTAGCGAGGATAGTGATAATGGCACTATTGGAACAAGTGTGAACCGTCTTCTTGCCAGGGAGCTTCTTCATCGGCCAACCCAAAGATCCCCCGAAAGGGAACCCAGTGCAAATACTTCAGGACAAGGCGCACTTCGACGACTTAGATATTTGAAGAATGCCGCTGTTATTCGAGATCTGTTAAATAGAGACAGTAGTAGTAGTAGTAGCCGCAGTAGCGATGAAGAGACAGGGAATTGCATTCCATTGAATGAACTTGCCAGTGGCGATGACAACGGTCAAAATAGTAAACGTTCCTCCGTAACGTTTAATCGGCCTCGGCGTAATACAAGCAGACGTTACCGTTTTCGCAGCCGTATACGGACGGAAGGCGAAAGAAGTCGTGCGGCAAGCGATTCGTCATCTAATAGCGAAGATCAAAACACTGGGACAAAGACGGAAGCAAATAGTAAGGTTAATGTTCTTTTCGTGGCTCAGGGTAACGATAGCTGCAGTACTGGTAACAATAAGGTTTATAAAAACACAGACGACAGTGATAATACTGACACTCCACGTCTAAGAATTACTTGCGAAAACGGAAATGTAGGGGCGGCATGTAGCGAAGGACATAGCTGCGTTGAAGGCCAAGAAGCAAGCAGAACTTTAAGGAAAGGAAAGAAATATGTTAACTCTGTCGTTTCCTCAGATAATTCCAGGTGTAGAAATAACGCTGATGATGAAAACACGATAAAAACGTTCGAAAAGGAAGATGATTCTGCCTCTGAAGATGATCAAAGATTTTGA

Transcript

rna-XM_068874091.1

GACTCAAATTTTCTGCATGCACCATCGCCTTGGTTTGTCTTGGTTTGCAAGAGATGTCACTGTGTAATGTGTGCGCTCGTCGGAACAGGAGATCGTATCTTTCAAGCTTTCCCAAGTGTCAGACCTTGGCAGAAACGTATGGATGTCCCATGGTGCGCAAGAGTTACTTCTCAGATCACTTTGGTCGCTGTCCTGGTCTTCACCGTAGAGATTTAGTGGGTCATTTTGGTTGTGTTAATGCCGTCGAATTCTCTAACAATGGAGGGGAATTCATTGTATCAGGTGGTGATGATCGCCGTGTCATGGTTTGGaatgttgaaaaatgtgttTATGGAAGTGGAACACCAGTCAGTTTGAAAGGAGAGCACAAATCTAACATATTCTGCACAGTGTTCGATAACGAAAACAGACACCTTTTTTCAGCAGGTAATGATAATATGGCTCTGCGGCACGACTTTGAGACTGGTGAAACAGTTGGCATGTACTACCATGATGACCCAGTTTATGGACTTCATGTCCATCCAGAAGATAGCAATGCCTTCCTTACAGCTTCTGATGATGGAAAAGTGTTGTTGTGGGATATAAGGGCTTCTTCAGTTCGAGGTTCATCAAGTTGTGTTGCTAATCTTGAATCAGCTTTCCATGCTGCTGTTTTTAATCCAGTGGATTATAATGTAATTGCTACTGCCAACTCCAAAAAGGGTGTACAGCTGTGGGATATCAGAGTACCCATAAGCTGTTTGAAGCAGTTTAGTTGTGACATCGGTCAAATGTGTGCCATGGGACTAAAGTGGAACACCACAGGTGACATGATAACAGCTCTTCGTCGCCGCCTCCCTCCTGttttgtaccatgtgaaacGCTCTTCTCCAATTGCCCAGTTTCACCATCCTGGCTACAGCAATGTGTGCACTATGAAGAGCAACTGTTTTGCAGGAAGTAAAGATCAGTATGTCGTATCTGGCTCTGATGACTTCAATGTGTACATTTGGGAAGTTCCAAATGACTGGGATGATGGAGGTCTGTTGATAACAGTTGGAAGAGCATTCCTGGTGCTTCAAGGCCATCGCTCCATTGTTAATCAAGTTCGTTTTAACCGCGCTAACCACATGCTTATATCAGCAGGTGTAGAAAAAGTCCTCAAGGTATGGAGTCCTTTCCCGGTTCCAGGAGGATGCAGTAGCACAGATGTTATTCCCGGAAATGTACGTCAGCCTTATTCGCATAGTGACTATCTTGGTTTCATCCAGTATGGTGGCCTCCCTTTGTCTCACGATGAATATGAAAACAGATCAACTGAAGAAGACCCACGCATGCTAGCCTTCTTTGATTCTCTTATTGAGCGTGAGAAAGAGAACTTTTGCTCTGACTCAGATGATAGCACGTGGGAGGATTTACACCTCAGTCTTATCCTTCAAGGCGGAAGTAGCGAGGATAGTGATAATGGCACTATTGGAACAAGTGTGAACCGTCTTCTTGCCAGGGAGCTTCTTCATCGGCCAACCCAAAGATCCCCCGAAAGGGAACCCAGTGCAAATACTTCAGGACAAGGCGCACTTCGACGACTTAGATATTTGAAGAATGCCGCTGTTATTCGAGATCTGTTAAATAGAgacagtagtagtagtagtagccgCAGTAGCGATGAAGAGACAGGGAATTGCATTCCATTGAATGAACTTGCCAGTGGCGATGACAACGGTCAAAATAGTAAACGTTCCTCCGTAACGTTTAATCGGCCTCGGCGTAATACAAGCAGACGTTACCGTTTTCGCAGCCGTATACGGACGGAAGGCGAAAGAAGTCGTGCGGCAAGCGATTCGTCATCTAATAGCGAAGATCAAAACACTGGGACAAAGACGGAAGCAAATAGTAAGGTTAATGTTCTTTTCGTGGCTCAGGGTAACGATAGCTGCAGTACTGGTAACAATAAGGTTTATAAAAACACAGACGACAGTGATAATACTGACACTCCACGTCTAAGAATTACTTGCGAAAACGGAAATGTAGGGGCGGCATGTAGCGAAGGACATAGCTGCGTTGAAGGCCAAGAAGCAAGCAGAActttaaggaaaggaaagaaatatgTTAACTCTGTCGTTTCCTCAGATAATTCCAGGTGTAGAAATAACGCTGATGATGAAAACACGATAAAAACGTTCGAAAAGGAAGATGATTCTGCCTCTGAAGATGATCAAAGATTTTGAAATAATTGCATGTAATATCA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q80T85	DDB1- and CUL4-associated factor 5 OS=Mus musculus OX=10090 GN=Dcaf5 PE=1 SV=2
Q96JK2	DDB1- and CUL4-associated factor 5 OS=Homo sapiens OX=9606 GN=DCAF5 PE=1 SV=2
O94527	WD repeat protein iqw1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=iqw1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007886 (this species only)
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR045151 all species →	Family	DDB1- and CUL4-associated factor 8-like	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15574 all species →	WD REPEAT DOMAIN-CONTAINING FAMILY	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0080008 all species →	Cellular Component	Cul4-RING E3 ubiquitin ligase complex	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	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
K11800	DCAF5, BCRP2; DDB1- and CUL4-associated factor 5	-	Ubiquitin system	ko04121	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_068730192.1 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

80.0Max TPM

20.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	29	20.13	80.00

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	80.00
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	41.33
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	41.20
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	36.17
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	29.75
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	28.91
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	27.91
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	27.79
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	26.81
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	26.59
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	25.81
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	25.36
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	25.29
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	24.82
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	24.53
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	22.69
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	21.22
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	21.18
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	21.09
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	20.75
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	18.12
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	17.61
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	16.09
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	14.38
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	13.73
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	12.91
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	11.82
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	10.77
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	10.10
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
SRR12959227	Polyps	Polyps	E3 day3	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.