Gene detail

Detailed information of XP_074608409.1 in Acropora palmata

Genomic Location: NC_133893.1:12428771...12464737
NR annotation: CAH3162129.1, unnamed protein product [Pocillopora meandrina]
Species Acropora palmata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

XP_074608409.1

ATGGTGAAGGATCAGTTCAGAGAGACAGGGGTCACCAAGAAAATAAGCCATGTAAACTTTGGTTTGTTCTCACCGGAGCAGATGCAGCAATATGCTCACATTCACTGTGTTAGCAAAAATTTGTACAATCAAGACTCAGGGCGTACTCCCATTCCCTTTGGAGTATTGGACTCTCATATGGGAATAAGTTCCAAAGACCGTAGTTGTGAAACTTGTGGAAAAGTGTTGGCTGATTGTGTTGGTCACTATGGTTACCTGAACCTTGAACTTCCTGTTTTTCATGTTGGATTCTATAGATCAACTATTGTAATTCTGCAAACAATTTGCAAGACTTGTTCGAGAGTTCTCTTACCGCCACAAGAAAAGAAGCATTTTCTGGATCAGTTAAGTCGCCCTGGAGTTTCTGCATTGATGAGGAAGGTTATCAAAAAAAAGATTGTGGAAAAGTGTAAAAAGTTTTCTCATTGTCCATACTGTGAAGCTTTGAATGGTTTTGTACGAAAAAGTGGTATGATGAAGATTGTACATGAAAAGTACAAATCGGCCAGGAAGTTTGTTGACCCTGTCATCTCAGAGTTCCAAGCATCATTTGGCTCAGCAATAGAATACAACAAGGAGCTGGACACCTTTGTCAACAAAGCGCAGGAAGTGCTCAATCCATTGCGAGTCATAACCCTATTTGAACAAATACCAGACCAGGACTGTCCTTTGCTGATGATGAAGCCAGAACTGGGTAGACCAGAGAACCTAATAGTCACTCGCCTGCTTGTGCCACCTGTGTGTATTAGACCATCAGTTGTCAGTGAGCTACAAAGTGGAACCAATGAAGATGATATAACCATGAAGTTGACTGAAATTATTTTCCTCAATGATGTCATTACTAAACACAGAGCAACGGGCGCAAAGATACAAATGATAATGGAAGACTGGGATTTCCTTCAGCTTCAGTGTGCACTGTATATCAACAGTGAAGTGTCAGGCATTCCTTTGAGTATGCAGCCAAAGAAAGGTACCAGAGGCTTTGTGCAACGTCTGAAGGGCAAGCAGGGTCGATTTCGAGGAAATTTGTCGGGAAAAAGAGTTGACTACTCCGGACGAACAGTTATTTCTCCAGATCCAAACCTGCGTATTGATCAGGTTGCCGTCCCTGAACTTGTTGCGAAGATCCTTACGTATCCTGAAAGGGTTACAGAGGCCAACATGGATTTAATGAAGAAACTAATTTTGAACGGCGCTGACAAACATCCAGGAGCAAACTTCATACAGCAAAGGGAAACCAATATCCGAAAATTTCTCAAGTATGGTAACAGGAAACAGATCAGCAAAGAATTAAGGTATGGTGACATCGTTGAGCGTCATTTAATGGACGGAGATGTTGTGTTATTCAACCGACAGCCATCGCTTCACAAGCTCAGTATCATGGCGCATCAGGCTGTGGTGCGACCTCATCGGACATTCCGATTCAATGAATGCGTCTGTACCCCTTACAATGCGGATTTTGATGGAGATGAAATGAACCTTCATCTTCCACAAACAGAAGAAGCTAAAGCAGAAGCACTCACACTTATGGGGGTGAAAGCCAACTTGGTGACGCCTCGTAACGGCGAGCCTTTGATCGCTGCAATTCAAGATTTCATAACAGGAGCATATCTGTTAACACAAAAGGACGTTTTTCTCGATCGGAGCCACATCTCACAGATTTTAGCTTATATACTGGCAGGGAAGGATGTGAACATGAAGATCGATCTCCCCCCTCCTGTTATCTTGAAGCCTGTGAAACTGTGGACTGGAAAACAAGTGTTTAACGTCGTTTTGAGACCCAACAAGAACATACCGATTAAAATGAATTTACGAACAAAAGGGAAGCAGTACACTAGTGGAGAAGATCTCTGTGTCAATGACTCCTATGTGGTGATTCACAACAGCGAGCTGATGTGTGGCGCTCTTGATAAAGCGGTTGTAGGATCAGGTTCAAAAAGCGGTATCTTCTATATTCTTCTGAGAGACTTTGGCGGCCAGGTGGCAGCAGACGCTATGTGGAGAGTGGCAAGAGTTTGCCCATTTTTTCTCAGCAATAGAGGATTTTCCATTGGAATTGGTGACGTCACCCCTGGCCATGGCCTATTGCAAGCGAAAGATGAACTGCTCAGGAATGGTTATTCAAAGTGTGACAGCTTTATTCAGGATTTCAAAGAAGGCAAGTTGCAAACTCAGCCAGGATGCAGTGCAGACGATACGCTGGAGGCAGTCATCCTTAAAGAGTTGTCTGTTATAAGAGATCACGCCGGCAAAGCGTGTCTTCGTGAACTTCACAAGTCCAACAGTCCACTGACCATGGCAGTTTGTGGCTCCAAAGGTTCGTTTATCAACATCTCACAAATGATCGCTTGTGTTGGCCAGCAGGCGATATCAGGCAAAAGAATTCCCAACGGCTTTGAAGACAGAGCCTTACCTCACTTTCATCGCCATTCCAAATCGCCTGCAGCCAAAGGCTTCGTGAGAAACAGCTTTTACTCGGGCTTGACCCCAACTGAGTTCTTTTTTCACACCATGGCTGGACGAGAAGGTCTTGTGGACACCGCTGTTAAAACAGCAGAAACTGGTTACATGCAGAGAAGATTGGTTAAGTCGTTGGAAGATCTTGCAACCCAGTACGACCTATCAGTCCGAAACTCTGTTGGCGACATGGTACAGTTCATGTATGGAGGAGATGGACTGGATCCAACCGACATGGAAGGCAAAGATAAACCGCTGGATTATAACCGCGTGTTCAGTCACGTCCAGTGCTCAGTGCCAATGAAAGATGAAGAAAACTTGACCGCACAGGAGATTAAAGAAGAAGCTTTGTTAACCATTGATGGCCCTGATTTCCATGGTTGTGGCCGAGAATTTAAAAAAGAACTAAAAGGGTTCATCCAAGGCATCGCAATCAAAGCAGAGTTGAAACAGATCAAGCTACAAAGATCTTCCGAAAAGGCTGATGTTTCTCAAGTTCTTTCATGGGTGGATCGCTGCACTTTGTCGCAACTGAGGCACTTCCTGAATCTTTGCAAAGAAAAATACTCCAGAGCAAAGATGGAGCCCAGTACAGCAGTAGGAGCCCTGTGCGCTCAGAGTATTGGAGAGCCTGGAACACAGATGACTTTGAAAACATTTCATTTCGCTGGGGTCGCGTCTATGAATATTACTCTTGGTGTTCCCCGAATCAAGGAAATCATTAACGCCTCTCGCTTCATTAGCACACCAATAATATCGGCACAGCTCATGAATGACAACGACGCTGACGAAGCTAGAGCAGTCAAAGGGCGCATAGAAAAGACACTGTTAGGAGAGGTTTCTGAGTACATCGAGGAAGTCTTCCTTCCCGACAGTTGCTTCATTCTCGTTAAACTGGCAATGGATAGGATTAAACTGTTAAAGCTTGAAGTTGATGTCGACTCTATTCGATTTGCCATATGCACCACGAGAAAACTCAAACTCAAGCCACAGCAAGTGAATGCCTTGAGTATTTCAGAACTGTGTATTTATCCCAGTGAAAGTGGAAAATCCTCGCTGCATTACACAATGCAAATGTTGAAGACTGATCTACCAAATGTCCTTATTAAGGGTCACAAGAACGTCAATCGCGCTATTATTCACGTGGATGAGAGTAAAGGCGATACATACAAGCTGTTGGTTGAAGGAGATGACTTGCTCTCTGTCATGTCTACAGTTGGCGTCAAAGGAACAGCAACAACTTCAAACAACACAGCTGAAGTTGAAAGAGTTCTTGGCATTGAGGCTGCAAGATCAACCATCATGAATGAAATTAACATGACAATGAAGAGTCATGGTATGAGTATTGATGCGCGTCACGTGATGCTTCTTGCTGACCTCATGACATACAAGGGGGAGGTACTTGGAATAACAAGATTTGGATTAGCAAAGATGAAGGAGAGCGTTCTAATGCTTGCGTCTTTCGAGAAGACATCTGATCATTTGTTCGACGCCGCTTTAGAAGGCAAAAGAGACTCCATTGATGGAGTTAGTGAATGTATTATTATGGGAATCCCGATGAGTATTGGCACTGGAATGTTCAAGCTTCTTCACAGGCACGCGATAACTGGACCACCAAGCCAGCGGAATCTCCTGTTTGACAACCCTGAGTTCCATCTGCCTCAGCCTACAACAGCAGCAACGGTGCGGTAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O14802	DNA-directed RNA polymerase III subunit RPC1 OS=Homo sapiens OX=9606 GN=POLR3A PE=1 SV=2
Q5ZL98	DNA-directed RNA polymerase III subunit RPC1 OS=Gallus gallus OX=9031 GN=POLR3A PE=2 SV=1
A4IF62	DNA-directed RNA polymerase III subunit RPC1 OS=Bos taurus OX=9913 GN=POLR3A PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003075 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04983 all species →	RNA_pol_Rpb1_3	RNA polymerase Rpb1, domain 3	Domain	Interproscan
PF05000 all species →	RNA_pol_Rpb1_4	RNA polymerase Rpb1, domain 4	Domain	Interproscan
PF04997 all species →	RNA_pol_Rpb1_1	RNA polymerase Rpb1, domain 1	Domain	Interproscan
PF04998 all species →	RNA_pol_Rpb1_5	RNA polymerase Rpb1, domain 5	Domain	Interproscan
PF00623 all species →	RNA_pol_Rpb1_2	RNA polymerase Rpb1, domain 2	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035698 all species →	Domain	DNA-directed RNA polymerase III subunit RPC1, C-terminal	Interproscan
IPR007066 all species →	Domain	RNA polymerase Rpb1, domain 3	Interproscan
IPR035697 all species →	Domain	DNA-directed RNA polymerase III subunit RPC1, N-terminal	Interproscan
IPR038120 all species →	Homologous_superfamily	RNA polymerase Rpb1, funnel domain superfamily	Interproscan
IPR006592 all species →	Domain	RNA polymerase, N-terminal	Interproscan
IPR007083 all species →	Domain	RNA polymerase Rpb1, domain 4	Interproscan
IPR045867 all species →	Family	DNA-directed RNA polymerase, subunit beta-prime	Interproscan
IPR042102 all species →	Homologous_superfamily	RNA polymerase Rpb1, domain 3 superfamily	Interproscan
IPR044893 all species →	Homologous_superfamily	RNA polymerase Rpb1, clamp domain superfamily	Interproscan
IPR007080 all species →	Domain	RNA polymerase Rpb1, domain 1	Interproscan
IPR007081 all species →	Domain	RNA polymerase Rpb1, domain 5	Interproscan
IPR000722 all species →	Domain	RNA polymerase, alpha subunit	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19376 all species →	DNA-DIRECTED RNA POLYMERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003899 all species →	Molecular Function	DNA-directed 5'-3' RNA polymerase activity	Interproscan
GO:0006351 all species →	Biological Process	DNA-templated transcription	Interproscan
GO:0001056 all species →	Molecular Function	RNA polymerase III activity	Interproscan
GO:0005666 all species →	Cellular Component	RNA polymerase III complex	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
K03018	RPC1, POLR3A; DNA-directed RNA polymerase III subunit RPC1	EC:2.7.7.6	Transcription machinery	ko03021	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_074608409.1 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

67TPM > 0

2Conditions

30.0Max TPM

15.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
all_coral_tissue · exposed	46	37	14.87	29.95
all_coral_tissue · baseline	38	30	17.16	28.81

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR8800068	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	29.95
SRR8800080	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	26.36
SRR8800051	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	26.31
SRR8800036	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	25.96
SRR8800099	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	25.66
SRR8800097	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	24.32
SRR8800077	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	24.30
SRR8800073	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	23.84
SRR8800034	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	23.01
SRR8800100	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	22.45
SRR8800038	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	21.36
SRR8800071	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	20.51
SRR8800065	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	20.40
SRR8800053	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	20.09
SRR8800047	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	19.53
SRR8800093	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	18.83
SRR8800079	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	18.78
SRR8800091	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	18.56
SRR8800083	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	18.33
SRR8800063	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	18.17
SRR8800060	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	16.89
SRR8800040	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	16.80
SRR8800045	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	16.76
SRR8800088	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	16.32
SRR8800044	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	16.25
SRR8800107	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	16.13
SRR8800058	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	16.08
SRR8800033	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	15.97
SRR8800026	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	14.00
SRR8800094	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	13.71
SRR8800028	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	12.29
SRR8800087	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	11.76
SRR8800062	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	11.62
SRR8800027	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	11.15
SRR8800089	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	11.07
SRR8800095	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	11.05
SRR8800061	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	9.67
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
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
SRR8800105	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	0.00
SRR8800043	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	28.81
SRR8800076	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	27.58
SRR8800059	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	27.45
SRR8800096	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	26.62
SRR8800067	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	26.58
SRR8800041	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	26.02
SRR8800057	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	25.76
SRR8800069	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	25.57
SRR8800072	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	25.53
SRR8800035	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	25.25
SRR8800048	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	25.17
SRR8800101	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	24.90
SRR8800098	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	24.58
SRR8800078	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	24.06
SRR8800037	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	23.97
SRR8800102	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	23.57
SRR8800074	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	21.77
SRR8800109	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	21.75
SRR8800049	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	21.60
SRR8800081	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	21.21
SRR8800050	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	20.90
SRR8800032	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	20.55
SRR8800104	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	18.75
SRR8800103	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	16.61
SRR8800084	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	16.44
SRR8800031	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	15.03
SRR8800064	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	14.63
SRR8800070	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	14.21
SRR8800085	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	9.37
SRR8800090	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	7.76
SRR8800030	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
SRR8800055	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	0.00
SRR8800082	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	0.00
SRR8800106	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.