TkA03G487080 | RubberDandelionOmics

Gene overview

TkA03G487080

Reference: TK1151 Chr: Chr03 Coordinates: 121885560-121888518 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2143 bp · TkA03G487080|TK1151|cDNA

ATAAAAATATTCTCTCTCATTCGCTTACAGCATATTTATGCACTAAATTCGTCACAGCCATCTAGAAATACTCGACCATTTAACATTCAACAAGTCAGACTCTCCCATTTCCTCATAATATCTCTCCTCTCTCTCTCTTCCTGGAAAAATCAAACCTTTACATCCAGAACAATCCAAAGGAAAAACAGCTTTCGTTTCAGCCAATTTCTTCGAACGGGGTATCATGCACGCGATCTAAACGTCACCTAAAACTCTAAAAG...

CDS

Download CDS FASTA

1638 bp · TkA03G487080|TK1151|CDS

ATGCAAACATCCCACAAACCTCGGAGCTCAGGAGCCGACCTCCACCGGTTGTACCACCAGTCGGACCAGATCGAGCCTTTCCGCTTAACCGGTCCCCATTTTCAAATCCTGAACAACAATAGCTACCCCGACACACTCACCAGCCGTCGCCAAGAAACCTCCGTCGTTTCCGGCCAGTCTTTCAACCTCGACCAAATCTTCACCTTGGAATCATCTTCTCCACCCATAGAAATCTACAATTCACCATTACCCAGTGTCTC...

Protein

Download Protein FASTA

545 aa · TkA03G487080|TK1151|PROTEIN

MQTSHKPRSSGADLHRLYHQSDQIEPFRLTGPHFQILNNNSYPDTLTSRRQETSVVSGQSFNLDQIFTLESSSPPIEIYNSPLPSVSSASRSPISPQNSSQSCVSNLHNSSLENTYGSPFSNGVEQALRSMEIELLGPGSDIEDGSITSSFESVNKYHKMLQMGISNWDVKQILIACAQAMDANEDTEALMEALQTKVSVTGDPIQRLGAYMLEGLKARKLSSGSVIYKKLKCYEPTPKDLMSYMSILYQICPYYKFAYT...

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	`TkA03G487080`
TK1151 ID	TkA03G487080
OH-1004 ID	LXL04_009974
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.300
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 TkA03G487080

Location Chr03:121885560-121888518 (+)

Description Similar to SCL13: Scarecrow-like protein 13

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g17230`	Probable transcription factor that acts as a positive regulator of continuous red light signals downstream of phytochrome B (phyB).	The GRAS protein SCL13 is a positive regulator of phytochrome-dependent red light signaling, but can also modulate phytochrome A responses.2006 · DOI: 10.1007/s00438-006-0123-y
`At5g48150`	Probable transcription factor involved in phytochrome A (phyA) signal transduction.	No verified direct reference in this release
`At1g50600`	Probable transcription factor involved in plant development.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0583600`	May play a regulatory role in the early step of oligosaccharide elicitor response, downstream of the membrane- associated high-affinity chitin-binding protein.	Identification and characterization of two new members of the GRAS gene family in rice responsive to N-acetylchitooligosaccharide elicitor.2003 · DOI: 10.1016/s0167-4781(02)00626-7
`Os07g0545800`	May play a regulatory role in the early step of oligosaccharide elicitor response, downstream of the membrane- associated high-affinity chitin-binding protein.	Identification and characterization of two new members of the GRAS gene family in rice responsive to N-acetylchitooligosaccharide elicitor.2003 · DOI: 10.1016/s0167-4781(02)00626-7

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_009974 · 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:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009408 response to heat Biological Process

GO:0009585 red, far-red light phototransduction Biological Process

GO:0009640 photomorphogenesis Biological Process

GO:0071456 cellular response to hypoxia Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0043565 sequence-specific DNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G50600

ath:AT4G17230

ath:AT5G48150

dosa:Os07g0545800

dosa:Os07g0583600

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.

Nucleus0.615

Rank 1 · TkA03G487080 · TK1151

Cytoplasm0.375

Rank 2 · TkA03G487080 · TK1151

Cell membrane0.088

Rank 3 · TkA03G487080 · TK1151

Endoplasmic reticulum0.040

Rank 4 · TkA03G487080 · TK1151

Plastid0.039

Rank 5 · TkA03G487080 · 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.

PF03514GRAS171-544 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA03G487080	`PF03514`	GRAS	171	544	2.8e-117	392.5

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9M0M5`	Arabidopsis thaliana	sp\|Q9M0M5\|SCL13_ARATH Scarecrow-like protein 13	51.500%	Swiss-Prot	High
`Q9LDL7`	Arabidopsis thaliana	sp\|Q9LDL7\|PAT1_ARATH Scarecrow-like transcription factor PAT1	52.400%	Swiss-Prot	High
`Q8H125`	Arabidopsis thaliana	sp\|Q8H125\|SCL5_ARATH Scarecrow-like protein 5	56.500%	Swiss-Prot	Medium
`Q8GVE1`	Oryza sativa subsp. japonica	sp\|Q8GVE1\|CIGR2_ORYSJ Chitin-inducible gibberellin-responsive protein 2	53.300%	Swiss-Prot	High
`Q69VG1`	Oryza sativa subsp. japonica	sp\|Q69VG1\|CIGR1_ORYSJ Chitin-inducible gibberellin-responsive protein 1	52.400%	Swiss-Prot	Medium

JBrowse

View in Genome Browser

Gene Card