Gene detail

Detailed information of XP_074607463.1 in Acropora palmata

Genomic Location: NC_133893.1:16398154...16416810
NR annotation: XP_029211457.2, pre-mRNA-processing factor 6-like [Acropora millepora]
Species Acropora palmata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

XP_074607463.1

ATGGCGCTTTTAAATCGGAAAAAGAAGTCATTCATTGGAGTACCAGCACCTTTGGGTTATGTTCCTGGCCTTGGGAGAGGTGCTACTGGTTTCACAACGCGATCTGACATTGGTCCCGCAAGAGATGCTACTGATATCAGTGATGAGCGGCATGGAAAACCAGGATTTGCTAATGAAAAGAAAGCACAGAATGAAGATGACGAAGAAGAAGATTTGAATGAATCAAATTATGATGAGTTTGCAGGATATGGAGGGAGTTTGTTTTCCAGTTGTCCTTATGAGAAGGATGACGAAGAGGCAGATGCAATATATGATTCTATTGACAGACGAATGGATGACAGAAGAAAAGAAAGGAGAGAGAAACGTTTTAAAGAAGAAATTGAACAATACCGTCAAGAAAGGCCAAAGATTCAGCAACAGTTCTCAGATCTAAAACGTAAGCTGGGTGATGTCTCAGAAGATGAGTGGCTGAGCATTCCAGAAGTTGGAGATTACAGAAGTAAAAAGCAGAGAAACCCTCGAACAGAAAAATTCACGCCTGTACCAGACAGTGTTTTGCATAGTGCACTGATGAGTGGAGAGAAAATGACATCCCTGGATGCACGGCAACAGAGATTTGGTGGGTTGCAGACCCCTTTTCCTGGCGGCATGACACCGAGCGGAATTGCCACGGGATTCTCTACTCCCTCTGCCGACCTTGATTTGATAAAAATCGGTGAAGCTCGAAAATCTCTTGTTGGTGTCAAGCTTGATCAGGCTTCAGATTCCGTTAGTGGTCAGACAGTTGTGGATCCTAAAGGTTATTTGACTGATCTACAAAGTTTAACACCCTCTGCTGGGGGTGATATCGGCGATATTAAGAAGGCACGGCTTCTCCTTAAGTCAGTTATCACCACGAACCCTCAACATGGACCTGGTTGGATAGCGGCTGCTCGACTTGAAGAGGTGACAGGTCGCATGCAAGCGGCGCGAAACACGATCATGAAAGGAACGGAAGTTTGTTCAAAGAATGAGGATGTCTGGCTTGAGGCTATACGATTGCAGCCTCCAGAGTCCGCGAACGCAGTTTGTGCGCAAGCCGTTGGTCAGCTTCCATTATCTGTGCGACTGTGGATCAAAGCAGCGGCGCTGGAGGACGAAATGAAAGCCAAGAAACGAGTTTACAGAAAAGCCCTTGAGCACATACCAAACTCAGTGAGGATTTGGAAGGCGGCAGTAGAGTTGGAAGGACCAGAGGACGCGCAGATCATGTTGAGCAGAGCGGTGGAATGTTGTCCCACCAGTGTCGAGCTCTGGCTTGCTCTTGCTCGATTGGAAACTTACGAAAATGCGAGAAAGGTTTTGAACAAAGCACGCGAAAATATCCCGACTGATCGACAAATCTGGATAACAGCAGCTAAACTGGAAGAAGCGAACGACAACCTCCCTATGGTGGAAAAAATCATTGACAGAGCTGTGACTTCTTTAAGGGCAAACGGCGTGGAAATCAACAGGGATCAGTGGATTAAGGATGCCGAAGAGAGCGAGAAAGCTGACAGCGAAGTGACATGCAGAGCTATTATCAACACTGTAATCGGCGTTGGAGTGGAAGAAGAAGACAGAAAACACACGTGGATGGAAGATGCTAACAGCTGTGTTGCAAACAACGCATTCGAGTGTGCAAGAGCTATCTACGCGCATGCTCTGTCCGTGTTCCCCAGCAAGAAAAGTGTTTGGCTGCGAGCTGCACACTTCGAAAAGAATCATGGGACGAGGCAATCTTTAGAGTCTCTGCTGCAAAATGCAGTCAAGCACTGTCCGAAAGCGGAAGTTTTGTGGCTGATGGGTGCAAAATCCAAGTGGCTGGCTGGTGAGATTTATGACGCTCGTTCCATCTTGGCCTTGGCGTTTCAAGCCAATCCCAACAGTGAAGAAATCTGGCTGGCTGCCGTGAAACTTGAGAGTGAAAATAATGAAGATCAGCGAGCGAGAAAGCTTCTCCAGAGGGCAAGACTCAACGCCTGTACTCCAAGGGTGATGATGAAGTCGATCAAGCTAGAATGGGTCTTACGGAACCTTTCAGAGGCAGAGAAGTTACTAGACGAAGCTGTTCAAAAATACCCCGATTTCGCAAAGCTCTGGATGATGATGGGCCAAATACACCAAGAACAGAATCATATAGACAGCGCTCGAGAAGCTTACAAGCAAGGGACAAAAAAATGTACCCGTTCCATTCCCATTTGGTTATTACTCGCGAGGCTAGAAGAGAACGCAGGGCAGACAACTAAAGCGAGATCCGTTTTGGAGCAAGCTCGTCAAAGAAATCCGAAGTGTCCCGAACTATGGCTAGAGGCGGTTCGGATAGAAACCAGAGGCGGACGCAAGGATTTCGCGCGAACTTTAATGGCTAAAGCCATGCAGGAGTGTCCAACCTCTGGAATTTTATGGGCAGAAGCCATTTTTATGGAAAGCAGGCCTCAGCGAAAGACGAAAAGCGTCGATGCACTGAAGAGATGCGAGCATGATTGTCATGTGTTGTTAGCGGTGGCAAGATTGTTCTGGAGCGAAAGGAAAATAAACAAATCGAGGGAATGGTTTAACAGAGCTGTTAAACTCGACCCAGACCTCGGCGATTCATGGGCTTATTTCTACAAGTTCGAGCTTCAACATGGAACCGAGGCCCAACAAGAAAGTATCATGCAACGGTGCGTGATGGCCGAGCCACATCACGGGGAGAACTGGTGCGCAGTGTCCAAAGCTACACCGAACTGGAGGCTTCGAACAAAGGATATACTTCCTATAGTTGCCAAGTTTTTAAAGCCTGTGGAAAAGGAGTAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q91YR7	Pre-mRNA-processing factor 6 OS=Mus musculus OX=10090 GN=Prpf6 PE=1 SV=1
A1A5S1	Pre-mRNA-processing factor 6 OS=Rattus norvegicus OX=10116 GN=Prpf6 PE=1 SV=1
Q2KJJ0	Pre-mRNA-processing factor 6 OS=Bos taurus OX=9913 GN=PRPF6 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004674 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13428 all species →	TPR_14	Tetratricopeptide repeat	Repeat	Interproscan
PF13432 all species →	TPR_16	Tetratricopeptide repeat	Repeat	Interproscan
PF13181 all species →	TPR_8	Tetratricopeptide repeat	Repeat	Interproscan
PF06424 all species →	PRP1_N	PRP1 splicing factor, N-terminal	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR010491 all species →	Domain	PRP1 splicing factor, N-terminal	Interproscan
IPR003107 all species →	Repeat	HAT (Half-A-TPR) repeat	Interproscan
IPR045075 all species →	Family	Pre-mRNA-splicing factor Syf1-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11246 all species →	PRE-MRNA SPLICING FACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000398 all species →	Biological Process	mRNA splicing, via spliceosome	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0000244 all species →	Biological Process	spliceosomal tri-snRNP complex assembly	Interproscan
GO:0046540 all species →	Cellular Component	U4/U6 x U5 tri-snRNP complex	Interproscan
GO:0071013 all species →	Cellular Component	catalytic step 2 spliceosome	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
K12855	PRPF6, PRP6; pre-mRNA-processing factor 6	-	Spliceosome	ko03041	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_074607463.1 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

72TPM > 0

2Conditions

79.8Max TPM

28.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
all_coral_tissue · exposed	46	39	26.71	79.77
all_coral_tissue · baseline	38	33	30.11	53.03

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR8800042	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	79.77
SRR8800105	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	54.68
SRR8800068	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	45.20
SRR8800077	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	42.59
SRR8800051	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	39.90
SRR8800097	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	39.58
SRR8800099	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	39.01
SRR8800044	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	38.22
SRR8800053	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	37.89
SRR8800038	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	37.23
SRR8800071	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	36.36
SRR8800080	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	35.43
SRR8800083	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	35.24
SRR8800036	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	35.22
SRR8800045	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	34.94
SRR8800092	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	34.46
SRR8800093	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	33.26
SRR8800100	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	32.80
SRR8800079	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	30.06
SRR8800028	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	28.84
SRR8800062	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	28.47
SRR8800034	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	27.86
SRR8800040	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	27.35
SRR8800065	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	27.08
SRR8800060	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	25.89
SRR8800095	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	25.75
SRR8800058	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	24.61
SRR8800063	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	24.14
SRR8800047	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	24.07
SRR8800091	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	23.92
SRR8800107	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	22.47
SRR8800094	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	22.41
SRR8800089	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	20.16
SRR8800088	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	20.04
SRR8800026	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	19.84
SRR8800087	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	19.45
SRR8800027	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	19.10
SRR8800073	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	18.28
SRR8800033	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	17.16
SRR8800029	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
SRR8800056	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	0.00
SRR8800061	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
SRR8800106	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	53.03
SRR8800048	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	47.63
SRR8800101	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	45.23
SRR8800043	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	43.79
SRR8800041	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	43.32
SRR8800050	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	43.27
SRR8800069	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	42.60
SRR8800096	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	42.42
SRR8800057	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	41.76
SRR8800074	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	41.73
SRR8800049	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	38.54
SRR8800059	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	38.04
SRR8800081	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	37.08
SRR8800067	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	36.80
SRR8800037	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	36.47
SRR8800109	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	35.87
SRR8800078	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	35.09
SRR8800104	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	33.16
SRR8800072	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	32.88
SRR8800076	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	32.71
SRR8800108	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	32.69
SRR8800103	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	31.87
SRR8800098	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	31.51
SRR8800102	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	30.74
SRR8800082	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	29.54
SRR8800031	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	27.63
SRR8800064	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	27.29
SRR8800070	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	25.17
SRR8800090	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	23.14
SRR8800055	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	23.10
SRR8800085	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	22.67
SRR8800084	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	18.87
SRR8800030	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	18.43
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
SRR8800046	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
SRR8800054	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.