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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

TkA04G462690
Reference: TK1151 Chr: Chr04 Coordinates: 116801776-116804615 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2348 bp · TkA04G462690|TK1151|cDNA

TCTATTCTAGTTTCTGAGCATTTGTCAAAGTAAATCCAGTTTTATTACTGAAACAAAGAGAACACAGTTAAAAAGCAAATACACACACCCCTTCACGAATCACGACCCCGCGCGCAAGATTTCTTCAAATTAGGGTTTCACATCCACCAGTTATTGCAAAACCCCTAATCTCTGTGCATGAAAAGGGAACCTAGGGTGTTAATTTGTTCAGTTCAGGCTCTGTAGCAGCTTAAGTTACGAGAAATGGCTTCAACGGGGCC...

CDS

Download CDS FASTA

2121 bp · TkA04G462690|TK1151|CDS

ATGGCTTCAACGGGGCCACAACAATCATCAGCGTCTCTGAAGAGGCGTGACTCGACGGTGACTAGAGAATCAGATTTACTGACCATTACTCCATTAGGCGCTGGAAGTGAAGTTGGAAGATCATGTGTATTCATGACTTTCAAAGGGAAAACTGTTATGTTCGATTGCGGGATTCATCCTGCGTTTTCGGGCATGGCTGCTTTGCCTTACTTTGACGAAATCGACCCTTCCACCATCGACGTTCTTCTCATTACTCATTT...

Protein

Download Protein FASTA

706 aa · TkA04G462690|TK1151|PROTEIN

MASTGPQQSSASLKRRDSTVTRESDLLTITPLGAGSEVGRSCVFMTFKGKTVMFDCGIHPAFSGMAALPYFDEIDPSTIDVLLITHFHLDHAASLPYFLEKTTFKGRVFMTHATKAIYKLLLSDYVKVSKVSVEDMLFDEQDILRSMDKIEVIDFHQTLEVNGIRFWCYTAGHVLGAAMFMVDIAGVRVLYTGDYSREEDRHLRAAELPQFSPDICIIESTYGVQLHQSRHIREKRFTDVIHTTVSQGGRMLIPAFALGR...

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 IDTkA04G462690
TK1151 IDTkA04G462690
OH-1004 IDLXL04_038760
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)99.900
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 IDTkA04G462690
LocationChr04:116801776-116804615 (+)
DescriptionSimilar to CPSF73-I: Cleavage and polyadenylation specificity factor subunit 3-I
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g61010 Component of the cleavage and polyadenylation specificity factor (CPSF) complex that play a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition.
Unique features of plant cleavage and polyadenylation specificity factor revealed by proteomic studies.2009 · DOI: 10.1104/pp.109.142729

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_038760 · 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:0006398 mRNA 3'-end processing by stem-loop binding and cleavage Biological Process
GO:0016180 snRNA processing Biological Process
GO:0031124 mRNA 3'-end processing Biological Process
GO:0071045 nuclear histone mRNA catabolic process Biological Process
GO:0180010 co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway Biological Process
GO:0180012 co-transcriptional RNA 3'-end processing, cleavage and polyadenylation pathway Biological Process
GO:1900087 positive regulation of G1/S transition of mitotic cell cycle Biological Process
GO:0005634 nucleus Cellular Component
GO:0005654 nucleoplasm Cellular Component
GO:0005847 mRNA cleavage and polyadenylation specificity factor complex Cellular Component
GO:1990904 ribonucleoprotein complex Cellular Component
GO:0003723 RNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G61010
bta:281712
ddi:DDB_G0274799
hsa:51692
mmu:54451
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.

Nucleus0.800
Rank 1 · TkA04G462690 · TK1151
Cytoplasm0.296
Rank 2 · TkA04G462690 · TK1151
Mitochondrion0.043
Rank 3 · TkA04G462690 · TK1151
Cell membrane0.024
Rank 4 · TkA04G462690 · TK1151
Endoplasmic reticulum0.019
Rank 5 · TkA04G462690 · 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.

PF16661Lactamase_B_619-41 aa
PF13483Lactamase_B_338-199 aa
PF00753Lactamase_B39-201 aa
PF23023Anti-Pycsar_Apyc140-200 aa
PF16661Lactamase_B_645-209 aa
PF12706Lactamase_B_252-201 aa
PF10996Beta-Casp261-382 aa
PF16661Lactamase_B_6278-303 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G462690PF16661Lactamase_B_619416.1e-1865.6
TkA04G462690PF13483Lactamase_B_3381990.001719.1
TkA04G462690PF00753Lactamase_B392012.1e-1971.0
TkA04G462690PF23023Anti-Pycsar_Apyc1402001.1e-0835.8
TkA04G462690PF16661Lactamase_B_6452096.1e-1865.6
TkA04G462690PF12706Lactamase_B_2522012.9e-0627.7
TkA04G462690PF10996Beta-Casp2613823.1e-30105.9
TkA04G462690PF16661Lactamase_B_62783036.1e-1865.6
TkA04G462690PF07521RMMBL3974474.4e-1349.7
TkA04G462690PF12706Lactamase_B_24104542.9e-0627.7
TkA04G462690PF10996Beta-Casp4244603.1e-30105.9
TkA04G462690PF11718CPSF73-100_C4936981.6e-46159.3
TkA04G462690PF18947HAMP_25145490.07813.7
TkA04G462690PF25088GPKOW_C5345790.113.5
TkA04G462690PF25088GPKOW_C5976240.113.5
TkA04G462690PF00753Lactamase_B6046392.1e-1971.0

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
Q9C952Arabidopsis thalianasp|Q9C952|CPSF3_ARATH Cleavage and polyadenylation specificity factor subunit 3-I78.100%Swiss-ProtHigh

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