TkA02G397220 | RubberDandelionOmics

Gene overview

TkA02G397220

Reference: TK1151 Chr: Chr02 Coordinates: 100881131-100883110 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1312 bp · TkA02G397220|TK1151|cDNA

CGAAAACCTTTCAATGGAGGTGGCCGTGTAGGTGTGGCCGTGTAGGTGTGGGTGTGTGGGACCACTATCATTAGCAGCCCATATAAAAGTATAAAACACATTGCAAAACGACCCACATTCTTACACAACTCTCTCCTAGTTGTATCAGCGAAAATGAGCGGTGCCGGCAAGACGGTCTGCGTTACCGGAGCATCAGGTTACATAGCCTCATGGCTCGTCAAGTTATTACTTCAGCGCGGATACACCGTCAAAGCATCTGT...

CDS

Download CDS FASTA

987 bp · TkA02G397220|TK1151|CDS

ATGAGCGGTGCCGGCAAGACGGTCTGCGTTACCGGAGCATCAGGTTACATAGCCTCATGGCTCGTCAAGTTATTACTTCAGCGCGGATACACCGTCAAAGCATCTGTTCGCGATCCCAATAACCCTAAGAAGGTAGACCACTTACTCAAACTCGATGGAGCCAAAGAACGACTTCACTTATTCAAAGCCAACCTCCTTGAAGAAGGCTCCTTCGATGAAGCAATTGTCGGCTGTGAAGGCGTTTTCCACACAGCATCTCC...

Protein

Download Protein FASTA

328 aa · TkA02G397220|TK1151|PROTEIN

MSGAGKTVCVTGASGYIASWLVKLLLQRGYTVKASVRDPNNPKKVDHLLKLDGAKERLHLFKANLLEEGSFDEAIVGCEGVFHTASPFYHAVTDPQAELIDPAVKGTLNVLNSCSKASSVKRVVVTSSIASIAYNGKPRTPEVVVDETWFSNPDFCKEMKMWYVLSKTLAEEVAWKFAKEKGLDIVTIHPAMVIGPLLQPTLNTSAEAIANLFNGTQTYGNFSFGWVNVKDVANAHIQAFEIPSANGRYCLVEKVAHYSE...

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	`TkA02G397220`
TK1151 ID	TkA02G397220
OH-1004 ID	LXL04_005154
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	80.400
Protein coverage (%)	TK1151 98.171 / OH-1004 74.194 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

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA02G397220

Location Chr02:100881131-100883110 (+)

Description Similar to CCR1: Cinnamoyl-CoA reductase 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g15950`	Involved in the latter stages of lignin biosynthesis.	Cloning and characterization of irregular xylem4 (irx4): a severely lignin-deficient mutant of Arabidopsis.2001 · DOI: 10.1046/j.1365-313x.2001.01021.x Reassessment of effects on lignification and vascular development in the irx4 Arabidopsis mutant.2005 · DOI: 10.1016/j.phytochem.2004.12.016 Redirection of the phenylpropanoid pathway to feruloyl malate in Arabidopsis mutants deficient for cinnamoyl-CoA reductase 1.2008 · DOI: 10.1007/s00425-007-0669-x The simultaneous repression of CCR and CAD, two enzymes of the lignin biosynthetic pathway, results in sterility and dwarfism in Arabidopsis thaliana.2011 · DOI: 10.1093/mp/ssq045

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_005154 · 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:0007623 circadian rhythm Biological Process

GO:0009409 response to cold Biological Process

GO:0009699 phenylpropanoid biosynthetic process Biological Process

GO:0009809 lignin biosynthetic process Biological Process

GO:0010597 green leaf volatile biosynthetic process Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0000166 nucleotide binding Molecular Function

GO:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor Molecular Function

GO:0016621 cinnamoyl-CoA reductase activity Molecular Function

KEGG gene cross-reference

ath:AT1G15950

mtr:11424763

mtr:11427940

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

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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.

Cytoplasm0.796

Rank 1 · TkA02G397220 · TK1151

Nucleus0.235

Rank 2 · TkA02G397220 · TK1151

Endoplasmic reticulum0.076

Rank 3 · TkA02G397220 · TK1151

Cell membrane0.067

Rank 4 · TkA02G397220 · TK1151

Mitochondrion0.058

Rank 5 · TkA02G397220 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

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

PF05368NmrA6-105 aa

PF00106adh_short6-74 aa

PF08659KR7-133 aa

PF01370Epimerase8-245 aa

PF02719Polysacc_synt_28-128 aa

PF010733Beta_HSD10-240 aa

PF07993NAD_binding_410-203 aa

PF16363GDP_Man_Dehyd10-263 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA02G397220	`PF05368`	NmrA	6	105	2.4e-11	44.5
TkA02G397220	`PF00106`	adh_short	6	74	0.019	15.1
TkA02G397220	`PF08659`	KR	7	133	0.00057	20.6
TkA02G397220	`PF01370`	Epimerase	8	245	1.4e-23	84.3
TkA02G397220	`PF02719`	Polysacc_synt_2	8	128	0.0084	16.0
TkA02G397220	`PF01073`	3Beta_HSD	10	240	2e-17	63.8
TkA02G397220	`PF07993`	NAD_binding_4	10	203	8.9e-13	48.7
TkA02G397220	`PF16363`	GDP_Man_Dehyd	10	263	1.2e-12	48.7
TkA02G397220	`PF13460`	NAD_binding_10	12	144	3.6e-11	44.0
TkA02G397220	`PF05368`	NmrA	225	267	2.4e-11	44.5

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9S9N9`	Arabidopsis thaliana	sp\|Q9S9N9\|CCR1_ARATH Cinnamoyl-CoA reductase 1	50.500%	Swiss-Prot	High

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