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Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

TkA04G426950
Reference: TK1151 Chr: Chr04 Coordinates: 107759674-107763005 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2569 bp · TkA04G426950|TK1151|cDNA

GTGCGTCCATTTCGTAGGTTTCACCGTTTCAGCACTTCATCAACTTGCCGCCTGCAGTTTTTATTTTCCTCTTCAAACCCTCGTATCCCGACTTTTACTCCCAACCTCTCTTATCTATATCTCCTCTCTCTCTCCGCCGTACCCAGGCGGCGATCTAGGCTGTTCCCTGGTCGGATCACCGGCTAATCTATCCTTATTTATATCCTTCCCTCTCCTATCTCTCTCTCTATCTCTCTTATAACAGAAAAACAAAAAAATTG...

CDS

Download CDS FASTA

1959 bp · TkA04G426950|TK1151|CDS

ATGGCGGCTCAGGTTCAAGTTCAACCTCAGGCGGTGAGTGCTGGTGGCGGTGGTGCTGCTCCTGCTGGTGCTCAGCAGTTTGTACCGACTTCATTGTATGTTGGCGATCTGGAGTGGAATGTGACGGATTCGCAATTGTATGATCTGTTTAATCAGTTAGGCCAGGTGGTTTCTGTTCGAGTTTGCAGGGACTTGTCTACTCGACGATCGCTCGGCTATGGCTATGTCAACTACGCTAATCCTCAAGATGCTGCAAGGGC...

Protein

Download Protein FASTA

652 aa · TkA04G426950|TK1151|PROTEIN

MAAQVQVQPQAVSAGGGGAAPAGAQQFVPTSLYVGDLEWNVTDSQLYDLFNQLGQVVSVRVCRDLSTRRSLGYGYVNYANPQDAARAMEVLNFTPLNGKPIRIMYSHRDPSTRKSGSGNIFIKNLDKAIDQKALHDTFSTFGNILSCKIATDSTGQSKGYGFVQYDAEEAAQKAIEKLNGMLLNDKQVYVGPFLRKQERDLAVDKTKFTNIYVKNLSESTTDEDLNKTFSEYGTVTSAVVMRDSEGNSKGFGFVNFENAE...

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.

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ID Mapping

Input IDTkA04G426950
TK1151 IDTkA04G426950
OH-1004 IDLXL04_001595
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)85.200
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 versionTK1151 / 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 IDTkA04G426950
LocationChr04:107759674-107763005 (-)
DescriptionSimilar to PAB2: Polyadenylate-binding protein 2
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g34110 Binds the poly(A) tail of mRNA. No verified direct reference in this release
At1g49760 Binds the poly(A) tail of mRNA. No verified direct reference in this release
At2g23350 Binds the poly(A) tail of mRNA. No verified direct reference in this release
At1g71770 Binds the poly(A) tail of mRNA.
Differential organ-specific expression of three poly(A)-binding-protein genes from Arabidopsis thaliana.1993 · DOI: 10.1073/pnas.90.14.6686
A pollen-, ovule-, and early embryo-specific poly(A) binding protein from Arabidopsis complements essential functions in yeast.1996 · DOI: 10.1105/tpc.8.8.1261
At1g22760 Binds the poly(A) tail of mRNA.
Unexpected complexity of poly(A)-binding protein gene families in flowering plants: three conserved lineages that are at least 200 million years old and possible auto- and cross-regulation.2003 · DOI: 10.1093/genetics/163.1.311
Evidence that poly(A) binding protein has an evolutionarily conserved function in facilitating mRNA biogenesis and export.2003 · DOI: 10.1261/rna.5128903

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_001595 · 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:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay Biological Process
GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening Biological Process
GO:0006397 mRNA processing Biological Process
GO:0006413 translational initiation Biological Process
GO:0006417 regulation of translation Biological Process
GO:0006446 regulation of translational initiation Biological Process
GO:0048255 mRNA stabilization Biological Process
GO:0060211 regulation of nuclear-transcribed mRNA poly(A) tail shortening Biological Process
GO:1900151 regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay Biological Process
GO:0005634 nucleus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
KEGG gene cross-reference
ath:AT1G22760
ath:AT1G49760
ath:AT1G71770
ath:AT2G23350
ath:AT4G34110
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.

Cytoplasm0.656
Rank 1 · TkA04G426950 · TK1151
Nucleus0.459
Rank 2 · TkA04G426950 · TK1151
Cell membrane0.072
Rank 3 · TkA04G426950 · TK1151
Mitochondrion0.057
Rank 4 · TkA04G426950 · TK1151
Endoplasmic reticulum0.054
Rank 5 · TkA04G426950 · 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.

PF00076RRM_132-102 aa
PF13893RRM_532-108 aa
PF16367RRM_732-57 aa
PF22976RRM_1038-102 aa
PF16842RRM_occluded40-103 aa
PF08777RRM_341-90 aa
PF05172RRM_Nup3544-89 aa
PF14605Nup35_RRM_250-87 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G426950PF00076RRM_1321023.6e-92303.0
TkA04G426950PF13893RRM_5321081.9e-1350.9
TkA04G426950PF16367RRM_732576e-0833.3
TkA04G426950PF22976RRM_10381021.9e-1454.2
TkA04G426950PF16842RRM_occluded401031.8e-1454.1
TkA04G426950PF08777RRM_341903e-0937.6
TkA04G426950PF05172RRM_Nup3544891.1e-0732.4
TkA04G426950PF14605Nup35_RRM_250870.003418.0
TkA04G426950PF28977DUF848955920.2512.3
TkA04G426950PF29326RRM_MUD2_C691061.8e-0938.3
TkA04G426950PF11608RRM_MARF1721020.02415.5
TkA04G426950PF28976RRM_ACIN173921.6e-0938.4
TkA04G426950PF25015RBD_AKAP-17A74920.00417.3
TkA04G426950PF11767SET_assoc75960.0005220.3
TkA04G426950PF29396F07F6_N751090.04414.2
TkA04G426950PF24099RBD_DGKtheta751010.06814.0

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
P42731Arabidopsis thalianasp|P42731|PABP2_ARATH Polyadenylate-binding protein 270.300%Swiss-ProtHigh
Q9FXA2Arabidopsis thalianasp|Q9FXA2|PABP8_ARATH Polyadenylate-binding protein 870.900%Swiss-ProtHigh
O22173Arabidopsis thalianasp|O22173|PABP4_ARATH Polyadenylate-binding protein 460.400%Swiss-ProtHigh
Q05196Arabidopsis thalianasp|Q05196|PABP5_ARATH Polyadenylate-binding protein 555.200%Swiss-ProtHigh
O64380Arabidopsis thalianasp|O64380|PABP3_ARATH Polyadenylate-binding protein 355.600%Swiss-ProtHigh

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