Gene detail

Detailed information of g12167.t1 in Acropora digitifera

Genomic Location: chr5Alt:29894863...29901674
NR annotation: XP_015751165.1, PREDICTED: transcription factor GATA-3-like isoform X5 [Acropora digitifera]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

chr5Alt.g12167.t1

AAATATTGTTTGCTTTCAACCAGACACCACATCACAGCTTGCTCATCGTGGGGTTTATCCCATAAGACTCAACAGGCAGGGTTTTCTCGACTTGCGACTTTAAAGATGGAAGCAGTGGGCCCTGAACATAGATGGACACATTCGACGCCGACTCAACAACACGAAAACTCTCATGGCAGCGAGAGAGTACAACCTTCAGAGCAGCATCTTTGTTCCTTGGAAGGTTATTCTCGACTTGCCACTTTAAAAATGGAAGCAGTTGGCCCTGAGCACAAATGGATACATCCAATTTCCAGTCAGCAACACGAAAGTCCTCATAGCAGCGAAAGAGTGCAGTCCACAGCTTCCAACTGCGCAGGAAATAACATGAATTTGGTTGAAACAAACCAACTTTTACCTCCAGATGAGGTCGACGTTTTCTTTCACCACTTAGACAGCTCGGGAAATGCAACAAATTGGTCGTACGCACCCGGCGGTCGCGGCTATCGTCCACCAATGTGCCAAATGGCGGCACACGGAGCCACGGCTTTTCAGGATCCGCAAGGCCAATCTGGTCCTCAAGGAAGCTGTAGTCGAGTGTTTTTGCCAACTGCTCGAGTTCCTCCTGGTCAGGTTTGCCGTCCACACTTCCATACACCGATACAGTGGATCGAAAGCAAGCCAGCCCCTAGCCTGATGTCGCACGGCTGCTCAACTCCAAATCCTGCGTCAGTTTGGTGTCCGTCGTTCCAACAAGGTCATCGTCCGAGTCCTGTTCCAGTTTCGATGCCTCCTTCAGCAGTTTCGGGTTCCATGGCGCTGTCTCACGGCTCGGCGCACTTATTTCCTTTTCCCCCGACTCCCCCGAAGGAAAATTCAGGCGAAAATGGAATGATGGGCAGCGATATTTTCAGCTACGCCGATGGCCGCGAGTGTGTGAACTGCGGAGCAACTTCGACTCCTCTATGGCGAAGGGACGGAGGTGGGCATTACTTGTGCAATGCCTGTGGACTCTATCATAAAATGAACGGATCAAGTCGACCGCTTATTAAGCCTAAGAGAAGATTGTCGGCTGCCCGCAGAGCTGGAACCTCTTGTGCTAATTGTCATACCACACAAACTACGTTATGGCGTCGCAACCAAAATGGTGATCCTGTTTGCAATGCTTGCGGACTTTACTGGAAACTTCACGCGGTCAACCGGCCTCTTTCTATGAAGAAGGACGGAATTCAAACCAGAAACAGAAAGGTTTCGTCGAAAAACAAGAACAAAACCAAGGGAGTGAAACAAGAACAGAAACATGGTGTCGAAGATAAGCTGATGAGCGGCCGTGATTCTATACCCAGTATGAGTCAAGGAAACGTTGTCTCGAGCATGATCAGCCCAGTAATTAGTCCGACAATTCATACACCGACTGCCTTTTCAAGACCTTCAATGACTGGGATTCCTACTCTTCATCCAGGACTATACGGACCCCTTATAACGTCCACGCCAACAAATCCATCAAGTTATTTACCGCCACCGCCTTCAGTGTCGATTAACGCATCGTAGAGAACAACTGTGACCAGAAAAACGCTTCTCGATTATGGAGACGGACAATGTTTCAACGGAAGTAAACGCTAACACTGACTGAAGGAAGATGGTTGCTGAACTGATTCTGTAAAAGAGATTCGCTAACTGACAAAGTTCTTCATCATTTCGTCAAGTTCACAGTTTTTTCAATGTTTAGTATTATCATTATTATTCAGTGTTGCAAAAATGTCCGTGATGTGGCGCTAAACTCGGCTGGCAAGGAAAAAGAAAATTAGGAGTTTTTCGTACCTGTAATGTTCCTGTGATATTTCGTTTCGTTCATGGAATAGCCATGCGAAGGCACGAGTTAGATGAAGAAGACTGCGTTCGAAAACTGAAGGCAGCGCCGAGAACTGAAGAGAAAGCCGTACGGTGGTTACCAATGCAAAAGCTAGATTTTTCTGTTGTTCTTTTAACAGATTTAGACAGGTTAAATATTGTACAAATTCATGATAAGATTTGGTCTTTTACACTGAAGTCTAAGTTAACTTTTTTGCAGATAAAGCCGCCCTACTTGCCTTGTGGAAGATAAAAAGTCATATTTGATCTCATATAATATTTGTATGCAATTAAAAGTTTTATCGTGTATTCGCATATCGATCGCTTCTTGTCTCAAGGCTGAGAAATATAGATACGAGACCGTATCGGTCTAGAGAAAAAATTCGCTGTAAATATTAAAGGTGAAGAAAATATTAAATCTATTCATGTAAGGAAAAATGTTATCGCCAATTCCTCTTGGCTCGATCTTCTGGTTATCTTTGCGAGGATCGCTTCTATCTTGACTAGTTCAACTTGTATTTCTATCGCGTTTACTTCGTTTTCGTTGTTCTGTGGCCACTATTACTCTACCTAACTGCTATATAGCGTAAATATATGACCTAGTCTGGAAAAGAGAATGAAATAAAAGTCATATTGACTC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P23824	GATA-binding factor 2 OS=Gallus gallus OX=9031 GN=GATA2 PE=2 SV=1
P23770	GATA-binding factor 2 OS=Xenopus laevis OX=8355 GN=gata2 PE=2 SV=1
P23769	Endothelial transcription factor GATA-2 OS=Homo sapiens OX=9606 GN=GATA2 PE=1 SV=3

Gene family

Family type	Membership / link
Transcription factor family	zf-GATA · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00320 all species →	GATA	GATA zinc finger	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000679 all species →	Domain	Zinc finger, GATA-type	Interproscan
IPR013088 all species →	Homologous_superfamily	Zinc finger, NHR/GATA-type	Interproscan
IPR039355 all species →	Family	Transcription factor GATA	Interproscan
IPR016374 all species →	Family	Transcription factor, GATA-2/3	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10071 all species →	TRANSCRIPTION FACTOR GATA FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0043565 all species →	Molecular Function	sequence-specific DNA binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0000122 all species →	Biological Process	negative regulation of transcription by RNA polymerase II	Interproscan
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0045165 all species →	Biological Process	cell fate commitment	Interproscan
GO:0045944 all species →	Biological Process	positive regulation of transcription by RNA polymerase II	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	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
K17894	GATA2; GATA-binding protein 2	-	Transcription factors	ko03000	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of g12167.t1 across 39 RNA-seq samples of Acropora digitifera. 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.

39Samples

39TPM > 0

1Conditions

172.3Max TPM

141.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	39	141.93	172.27

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931	172.27
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931	172.09
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931	169.04
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931	166.93
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931	166.70
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931	166.54
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931	162.73
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931	157.32
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931	156.16
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931	154.46
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931	154.38
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931	151.75
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931	151.22
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931	151.06
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931	150.88
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931	146.43
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931	146.43
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931	146.40
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931	145.77
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931	141.55
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931	140.89
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931	139.98
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931	137.77
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931	137.21
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931	137.14
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931	134.04
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931	133.49
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931	132.85
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931	131.38
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931	130.85
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931	128.10
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931	127.20
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931	120.43
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931	120.17
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931	120.03
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931	111.31
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931	110.06
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931	109.56
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931	102.56

Source: CnidoSite RNA-seq expression matrices (ADIGI_TPM, StringTie quantification over 39 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.