Gene detail

Detailed information of XP_074608983.1 in Acropora palmata

Genomic Location: NC_133894.1:2623674...2660302
NR annotation: XP_029185488.2, E3 ubiquitin-protein ligase RNF123-like [Acropora millepora]
Species Acropora palmata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

XP_074608983.1

ATGGATGTAAATCAGTTCTTAACGGCTGTATTTCCATCGAAAAGTGACGAAAATATCGCCACGCCAAGACGAATGCTAGAATACGGAACTCTGCAGGACCATATAGTGGAAATTCTTTCGCAGTACACTGAGGGCCCCAAACCAGAACTTGATGAAGAAGGGCGAGCTTTAACAGATGGGAGAATTGGGCCTTTTGCTGTGTATATTGACAGAGCAAGTCTTTGCGGCTCCATGACAATGAAAGAGGGAAATGAGATTGAAAGCAAGAGTAATTTTAGCAGTGTTAGAGCAAGTACTTGTGTTTGTAAAGGAAAATGGATGTATGAAATCCTGCTTGGCTCCAAGGGAATTATGCAGTTAGGGTGGGCAACATTGCAGTGCAAGTTTACAAATGAGGAAGGAGTTGGTGATACTCCAGACTCTTTTGCTTATGATGGCCACCGAGTGAGAAAATGGAATGTCATGACTGGCAAATACGGAGAGGAATGGATGGCAGGTGATGTTATTGGATGCTGTATCGACTTGGACGAGGGCACAATCTCTTACAGCAGAAATGGCCTTTATTTGGGCGTGGCTTTCGACAATGTTCAGTTTGGTCCCGGTCAGGCCTATTTCCCAGCTGCCAGCTTATCGTATGGAGAATCATGTCAGATGAATTTTGGAGCAGCCCCATTCAAATTTCCTATTGATGGTTACAAACCCCTTCAGGATCCTCCAGTATCAGACCTCGCGAAAGCCAGTGAGCTTGTTGCATGCCTGGAAAGGCTGTTGCCTGCGCCGGACAGAATACCTTGCCTGCCGCCATCTCTTCATGGTCGATCTGATGCTTTGACTTTGCTCACAACTGCGCATGTCTTTGAAAAACTTGGACCTTTATTGACCAGCGGTTATTTGGGAGAAGAAGTCCTTTTGCCGTTCCTTCTGAGATCTTGCTCGAGTAGCAGTCCTTTGGAGCACCAACCTGGGGTTCACAAAGTGTTAGATCTTATGTGGGTCTGCATGGAGGATTTTGAGCTGGAGCCGTGTCTCTCTCATCTTTTAAACTCACTTGTCAAGTGTTACTGGTTTCAACCGGTTAGCATGGATTTCACGTCTCAGGTTCATTGTCTTACACTGGCTCTTGCTATTCTGAAACACGAGAGAACTCGGCGAATGTGGATCACCTGTAAAACTTTTCCGCAAAAATTCAGCTATTTCATGCACATTAAGCCACCAGATGACAATATTCTACAGTGTTCCTTCCCTCGGGTGTGGTGGGAAAGCGAGGATGAAACTTCAAAGCCAAGTGAAGAGTCGAAGACAGAGTACATGGCAGCTTGCAATATGCTCAGGAACAAAGTACAAGTTCTTGAAAACATTCAAGTTGAAATTTGCAAGATTTTACTGAAGGGCGATGATCGGCCAACACAGAATGCTAAGCCAACGAGAGTCTTATTTCTTGAAAAGTTTCGAAAATTTCTCCAGGAAAACATGATGATCATAACGCTGCAGCCATCAAGCGCATGCGCGGGCCCAGTGATCACGTGCTTCTATCACAGACTGGTGCAGGCCCTCCGCTGGCATTGGGAACAGTGGGCTCATGAAAAAGATTCACCAATCAAAAGTAAAGATGCTTATGTACCCAATCATGTCTTCTTTGATGACAGCATCAATTATTGGGATCTCTCCAGATTGGGTGGTGTATTGTCGCATCTCAAGAAAGCTTACAGTGAAGCCATAAGCGAGTCTGCCAACCGAGAGGAGTCTGGAGAAGCGAGTGATCCTTCAATGGCAAATGAAGATCGCAACCTCGATCTGTCATTGGTTGAAATGCTGGATGACGTCATCATGTTGTATCATATTGCTGTGCATAAGCAGTTGTCCAAGGTGAGAGCGGTGCGAGATAACATGAAACAAAATGTCAAAGCACTGGAGGAAACCATGGCAAAGATCAGACGCTGTAGCCCCGAGAGAACAGACGTGCTGACAGAGCTGGAAAGATCGAAACGCGTGTTCTTACAGGAGAGCACAAATTGTGCCAGACATATGGCTTGGGTGTCCATTCTTATCTTTACCGAGGAGAAACAAAATGACGTTCATTGGATGTTGAAGTGTATCATATCATCTGCTCAGCGAGGCGCCGCGAAGGGTCCGCTGTTTGAATTCACGCCTGAGTTTTACATGGATGCCGCTATCAATGCTTTCCATGGGCTCAGGCATTACTTTCACCCAACGAGCAACTTCAGTGATATTCCAGATGCCAGTTCTACACTGAGTAAAATGGCGGCGTTTCTCTGCACCCATTTCGTCGACCAAAGAATTATAAATCCAGATCTGCGTGATGTCATTATTCAATCTTTAGCAGCCTTTGTTTGTTATCCAGACAGTCTCGAAGCTGTGGAGCAGATGCCAGAGACATCATTGGAGAAGACTGTTCGCTCGCTGATGGCTGCCTATGATAAGCGCTCTTGGGTACAAACCACGTGGATTCTTGTTAGGGTTTGGAAGGGTTGCGGCTTCGCATTTCGTTACACCAGTTCACCGGATGCGCTCACACTTGGATTACCAGAACAAGGTCATTTGCGAGCTAGTCTTCAACCTCCACATCCCTCCACGAAGTGTCAGCAGTTGTTTGGTCAACTCTGCATCAAAGACAACAAACTTGCAAACGAGTTCCTGAACGGCTTGTTAAACCAGTTAAACTGGTCTTTCTCGGAGTTTATCGGAATGCTTCAGGAGATTCAACAAGTGACTCATGGAGTGGAGACGACCACGGACCCGAGGCATCTTCGGACATGTGCAGTGTGTTTCGATCTGACAGTCGGGTTAATGAGGGTGTTAGAAATGGTGGCATCGGTGGCTCCTGAAGTGTTTACAGACTGGAAACGACCATCGGCAGAATTGCACATCGCTCGTCTTTTCCAGCTGCTGACACAGGTTCTTAATCGTGTGACAGCGAGTTCAAACTTGTTTGAAAATGTCACGCGGTTGCATCTACCAGGTCTAGAAACAGTTGACAGGTTTCCTATTCTCGGTGCTGTGACTGGAATACTGTTGACTTTGCTCATGGAGGGCACAAGCGAAAGCAAAGAGAGAGCAACTTCATCGCTGCTAGCGGAACCTGGGTACAGCTTGGCCACAGTTAGCTTCTTGGTCGGAGGAAAAGAATCTGTCGCCGAGAGTTCCACATCAAAGTTCTCTTTCCAGAAATTGGTAAACAAGGATGTAACAACAGAAGAAGTGCAGCGTGTTGATGTTTTGGTAAAATACCTCGAGGAACAGGATTCGCAGGCACAACTACAGAAACAGGAATCCGTGGATGTCGACGAGTTATGTCCGATCTGTTACGCGACGAAGATGTCGGTCCGGTTCCTTCCATGTTTGCATGCATCCTGTCGATCTTGCATCTCTCGTCACCTCATGAACCACAAGGAATGCTTCTTTTGCAAAACCGTCGTGGACGAATGGGAAAACATCAACACAGAAAGTGGTGCAAAAAAGTCCGAAAAGGACCCTCGTTCATAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A0A5F9C6I2	E3 ubiquitin-protein ligase RNF123 OS=Oryctolagus cuniculus OX=9986 GN=RNF123 PE=1 SV=2
Q5XPI4	E3 ubiquitin-protein ligase RNF123 OS=Homo sapiens OX=9606 GN=RNF123 PE=1 SV=1
Q5XPI3	E3 ubiquitin-protein ligase RNF123 OS=Mus musculus OX=10090 GN=Rnf123 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002536 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13920 all species →	zf-C3HC4_3	Zinc finger, C3HC4 type (RING finger)	Domain	Interproscan
PF00622 all species →	SPRY	SPRY domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013320 all species →	Homologous_superfamily	Concanavalin A-like lectin/glucanase domain superfamily	Interproscan
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR001870 all species →	Domain	B30.2/SPRY domain	Interproscan
IPR003877 all species →	Domain	SPRY domain	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR043136 all species →	Homologous_superfamily	B30.2/SPRY domain superfamily	Interproscan
IPR035773 all species →	Domain	Ring finger protein 123, SPRY domain	Interproscan
IPR045129 all species →	Family	E3 ubiquitin-protein ligase RNF123/RSPRY1-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13363 all species →	RING FINGER AND SRY DOMAIN-CONTAINING	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0051603 all species →	Biological Process	proteolysis involved in protein catabolic process	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
K12169	KPC1, RNF123; Kip1 ubiquitination-promoting complex protein 1	EC:2.3.2.27	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_074608983.1 across 84 RNA-seq samples of Acropora palmata. 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.

84Samples

71TPM > 0

2Conditions

42.3Max TPM

17.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
all_coral_tissue · exposed	46	38	16.23	33.71
all_coral_tissue · baseline	38	33	19.95	42.28

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR8800105	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	33.71
SRR8800088	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	26.97
SRR8800065	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	26.75
SRR8800095	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	26.42
SRR8800087	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	25.78
SRR8800077	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	25.33
SRR8800068	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	25.20
SRR8800097	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	23.58
SRR8800026	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	22.92
SRR8800040	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	22.61
SRR8800036	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	22.60
SRR8800089	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	22.45
SRR8800099	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	22.03
SRR8800051	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	21.65
SRR8800062	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	21.27
SRR8800047	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	21.03
SRR8800038	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	20.83
SRR8800063	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	20.42
SRR8800058	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	20.32
SRR8800034	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	19.84
SRR8800107	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	19.45
SRR8800060	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	19.42
SRR8800083	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	19.09
SRR8800071	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	18.85
SRR8800091	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	18.58
SRR8800044	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	18.52
SRR8800053	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	17.93
SRR8800100	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	16.31
SRR8800027	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	16.00
SRR8800093	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	15.77
SRR8800094	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	14.54
SRR8800080	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	14.18
SRR8800073	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	13.57
SRR8800029	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	12.46
SRR8800079	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	12.39
SRR8800033	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	11.24
SRR8800061	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	9.36
SRR8800045	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	7.00
SRR8800028	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	0.00
SRR8800039	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	0.00
SRR8800042	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	0.00
SRR8800056	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	0.00
SRR8800066	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	0.00
SRR8800075	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	0.00
SRR8800086	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	0.00
SRR8800092	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	0.00
SRR8800046	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	42.28
SRR8800031	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	30.24
SRR8800101	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	27.44
SRR8800106	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	27.17
SRR8800048	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	26.93
SRR8800064	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	26.45
SRR8800057	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	26.31
SRR8800096	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	25.45
SRR8800069	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	24.67
SRR8800078	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	23.94
SRR8800098	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	23.83
SRR8800103	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	23.75
SRR8800074	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	23.69
SRR8800041	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	22.79
SRR8800030	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	22.52
SRR8800085	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	22.36
SRR8800109	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	22.11
SRR8800054	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	21.98
SRR8800072	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	21.96
SRR8800043	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	21.88
SRR8800037	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	21.38
SRR8800050	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	21.31
SRR8800067	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	21.04
SRR8800076	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	20.66
SRR8800084	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	20.33
SRR8800059	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	19.38
SRR8800090	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	18.69
SRR8800102	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	18.30
SRR8800070	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	18.28
SRR8800049	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	18.23
SRR8800081	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	18.03
SRR8800104	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	17.57
SRR8800082	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	17.28
SRR8800032	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	0.00
SRR8800035	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	0.00
SRR8800052	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	0.00
SRR8800055	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	0.00
SRR8800108	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	0.00

Source: CnidoSite RNA-seq expression matrices (APALM_TPM, StringTie quantification over 84 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.