TkA02G453920 | RubberDandelionOmics

Gene overview

TkA02G453920

Reference: TK1151 Chr: Chr02 Coordinates: 115591619-115594573 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1547 bp · TkA02G453920|TK1151|cDNA

CGACGTCGTCGCAACTCGCAACTCTGCAACTAAATGTGTGACCCGGCCCAGTAAAGGCCCGAATGCTGTACAAAACCCTACCCCCCTTCTCGGAATTGTCCTCGTCGAAGTCTTCGATATTTTTCCTTGTCGCTTTTCCACCCAAGCCCTAATTCGATCCCCAAATGGATGTGTCGAGGCTGTAATCTGCAATTCCCCATCACTATAGCCATATTATACAAACGGCTGTCTTGCTCATCGCTATATAATCGTTTTTCTGC...

CDS

Download CDS FASTA

849 bp · TkA02G453920|TK1151|CDS

ATGGCATCTCTGGATATGTCACTCGATGATATGATTAAAAACAGGCGTAATACAGATAGTGGGAGAGGTAGAGGCAGAGGTAGAGGTCGTGGTGGCCGAGGTCAAGGAAGATCTTTTGGTGGTGGAAGAACAACAACAGGGCCACCTCGCAGAGGTCCCCTTGCTGTGAAGGCTCGGCCCTCATCTTATACTATTGCAAAGTCTTTCTGCAGACCAAAGATTTCCAATTGGCAGCAGGGTTTATTTGAAGATAGTCTAAA...

Protein

Download Protein FASTA

282 aa · TkA02G453920|TK1151|PROTEIN

MASLDMSLDDMIKNRRNTDSGRGRGRGRGRGGRGQGRSFGGGRTTTGPPRRGPLAVKARPSSYTIAKSFCRPKISNWQQGLFEDSLKAVGLPGFDNGARLNVSNLDIGVTNEDIRELFSEIGELKRYAIHYDKNGRPSGSAEVLFARRSDAFQALKRYNNVQLDGKPMKIEIENSTSEMMPLSARVNVVGGRNGQRTVVMTSGVGRGRGGAVAANCSFGQRIRGGIRNGRNGGAANVRGGRGGGRGRVQSGGRGRGRGRK...

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

ID Mapping

Input ID	`TkA02G453920`
TK1151 ID	TkA02G453920
OH-1004 ID	LXL04_014044
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	84.000
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
Source version	TK1151 / GWHBCHF00000000

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA02G453920

Location Chr02:115591619-115594573 (-)

Description Similar to ALY4: THO complex subunit 4D

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g37720`	Export adapter involved in nuclear export of spliced and unspliced mRNA.	Arabidopsis coactivator ALY-like proteins, DIP1 and DIP2, interact physically with the DNA-binding domain of the Zn-finger poly(ADP-ribose) polymerase.2001 · DOI: 10.1093/jxb/52.359.1375 ALY proteins participate in multifaceted Nep1Mo-triggered responses in Nicotiana benthamiana and Arabidopsis thaliana.2014 · DOI: 10.1093/jxb/eru136
`At1g66260`	Export adapter involved in nuclear export of spliced and unspliced mRNA.	Arabidopsis coactivator ALY-like proteins, DIP1 and DIP2, interact physically with the DNA-binding domain of the Zn-finger poly(ADP-ribose) polymerase.2001 · DOI: 10.1093/jxb/52.359.1375
`At5g02530`	Export adapter involved in nuclear export of spliced and unspliced mRNA.	No verified direct reference in this release
`At5g59950`	Export adapter involved in nuclear export of spliced and unspliced mRNA.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_014044 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

GO annotations (OH1004 source)

GO:0006364 rRNA processing Biological Process

GO:0006397 mRNA processing Biological Process

GO:0006405 RNA export from nucleus Biological Process

GO:0006406 mRNA export from nucleus Biological Process

GO:0006952 defense response Biological Process

GO:0008380 RNA splicing Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005886 plasma membrane Cellular Component

KEGG gene cross-reference

ath:AT1G66260

ath:AT5G02530

ath:AT5G37720

ath:AT5G59950

xtr:549781

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

View expression for this gene

Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Nucleus0.930

Rank 1 · TkA02G453920 · TK1151

Cytoplasm0.154

Rank 2 · TkA02G453920 · TK1151

Cell membrane0.014

Rank 3 · TkA02G453920 · TK1151

Mitochondrion0.012

Rank 4 · TkA02G453920 · TK1151

Extracellular0.011

Rank 5 · TkA02G453920 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF13865FoP_duplication13-47 aa

PF17253DUF532021-51 aa

PF08777RRM_3100-167 aa

PF30126YHR127W_C100-172 aa

PF00076RRM_1102-168 aa

PF22976RRM_10104-166 aa

PF28441RRM_11110-180 aa

PF13865FoP_duplication192-210 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA02G453920	`PF13865`	FoP_duplication	13	47	3.7e-06	28.2
TkA02G453920	`PF17253`	DUF5320	21	51	0.042	15.7
TkA02G453920	`PF08777`	RRM_3	100	167	0.07	13.9
TkA02G453920	`PF30126`	YHR127W_C	100	172	0.09	13.5
TkA02G453920	`PF00076`	RRM_1	102	168	1e-11	45.2
TkA02G453920	`PF22976`	RRM_10	104	166	0.15	12.9
TkA02G453920	`PF28441`	RRM_11	110	180	0.013	16.5
TkA02G453920	`PF13865`	FoP_duplication	192	210	3.7e-06	28.2
TkA02G453920	`PF13865`	FoP_duplication	227	279	3.7e-06	28.2
TkA02G453920	`PF17253`	DUF5320	228	262	0.042	15.7

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q6NQ72`	Arabidopsis thaliana	sp\|Q6NQ72\|THO4D_ARATH THO complex subunit 4D	55.300%	Swiss-Prot	High
`Q94EH8`	Arabidopsis thaliana	sp\|Q94EH8\|THO4C_ARATH THO complex subunit 4C	47.900%	Swiss-Prot	Medium
`Q8L719`	Arabidopsis thaliana	sp\|Q8L719\|THO4B_ARATH THO complex subunit 4B	40.200%	Swiss-Prot	Medium
`Q8L773`	Arabidopsis thaliana	sp\|Q8L773\|THO4A_ARATH THO complex subunit 4A	48.300%	Swiss-Prot	Medium

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