LXL04_027188 | RubberDandelionOmics

Gene overview

LXL04_027188

Reference: OH-1004 Chr: Chr06 Coordinates: 10692355-10693222 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

768 bp · LXL04_027188|LXL04_027188|OH1004|cDNA

ATGGATCGTGTTGAGGGTGAGGAAATGGAGATCGTTAGTGACATTAGTGAGGGTTCTAGCAATTGTGAAGCCTTGTTACCAAAACCAATTAGGGGTGTTCGCAATGACAATCTACCTCCTTTTGTGAGCAAACTCTATGATATAGTGAGCAACGAGTCAATGGACTCGATAATCTCATGGGTTGGTGCTACAAGTTTCGTCATATGGAACGAACAAGACTTTGTCATTAACCTCCTCCCTATGATGTCAAAAAGTAATAG...

CDS

Download CDS FASTA

681 bp · LXL04_027188|LXL04_027188|OH1004|CDS

ATGGATCGTGTTGAGGGTGAGGAAATGGAGATCGTTAGTGACATTAGTGAGGGTTCTAGCAATTGTGAAGCCTTGTTACCAAAACCAATTAGGGGTGTTCGCAATGACAATCTACCTCCTTTTGTGAGCAAACTCTATGATATAGTGAGCAACGAGTCAATGGACTCGATAATCTCATGGGTTGGTGCTACAAGTTTCGTCATATGGAACGAACAAGACTTTGTCATTAACCTCCTCCCTATGATGTCAAAAAGTAATAG...

Protein

Download Protein FASTA

226 aa · LXL04_027188|LXL04_027188|OH1004|PROTEIN

MDRVEGEEMEIVSDISEGSSNCEALLPKPIRGVRNDNLPPFVSKLYDIVSNESMDSIISWVGATSFVIWNEQDFVINLLPMMSKSNSFSSFVTQLNNYGFKKISWDRREYAHEWFQKGEWHLLKNIKRRSKPNTCVVDKMMLEMEKLERESKELDLGLVKFKEYVEKTILNQKSIVQAMANTIKSTLHGARISHELKYEKEKGTNSLKASMSCQSSCSQVGADLAY

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	`LXL04_027188`
TK1151 ID	TkA07G039410
OH-1004 ID	LXL04_027188
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	86.200
Protein coverage (%)	TK1151 78.235 / OH-1004 61.062 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	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_027188

Location Chr06:10692355-10693222 (-)

Description Similar to HSFA2B: Heat stress transcription factor A-2b

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g22830`	Transcriptional activator that specifically binds DNA sequence 5'-AGAAnnTTCT-3' known as heat shock promoter elements (HSE).	No verified direct reference in this release
`At5g43840`	Transcriptional activator that specifically binds DNA sequence 5'-AGAAnnTTCT-3' known as heat shock promoter elements (HSE).	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0178600`	Transcriptional regulator that specifically binds DNA of heat shock promoter elements (HSE).	No verified direct reference in this release
`Os03g0795900`	Transcriptional activator expressed upon environmental stress that specifically binds DNA of heat shock promoter elements (HSE).	Expression of rice heat stress transcription factor OsHsfA2e enhances tolerance to environmental stresses in transgenic Arabidopsis.2008 · DOI: 10.1007/s00425-007-0670-4
`Os10g0419300`	Transcriptional activator that specifically binds DNA of heat shock promoter elements (HSE).	Isolation and characterization of a cDNA encoding two novel heat-shock factor OsHSF6 and OsHSF12 in Oryza sativa L.2005 · DOI: 10.5483/bmbrep.2005.38.5.602

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_027188 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0034605 cellular response to heat Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0042802 identical protein binding Molecular Function

KEGG gene cross-reference

ath:AT3G22830

ath:AT5G43840

dosa:Os03g0795900

dosa:Os07g0178600

dosa:Os10g0419300

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.

Nucleus0.924

Rank 1 · LXL04_027188 · OH-1004

Cytoplasm0.166

Rank 2 · LXL04_027188 · OH-1004

Cell membrane0.023

Rank 3 · LXL04_027188 · OH-1004

Mitochondrion0.015

Rank 4 · LXL04_027188 · OH-1004

Endoplasmic reticulum0.010

Rank 5 · LXL04_027188 · OH-1004

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.

PF00447.24HSF_DNA-bind41-129 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027188	`PF00447.24`	HSF_DNA-bind	41	129	4e-22	79.3

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
`Q9LUH8`	Arabidopsis thaliana	Heat stress transcription factor A-6b	37.195%	Swiss-Prot	moderate database homology
`Q1PDN3`	Arabidopsis thaliana	Heat stress transcription factor A-6a	38.889%	Swiss-Prot	moderate database homology
`Q6VBB2`	Oryza sativa subsp. japonica	Heat stress transcription factor A-2b	34.184%	Swiss-Prot	moderate database homology
`Q6F388`	Oryza sativa subsp. japonica	Heat stress transcription factor A-2e	35.602%	Swiss-Prot	moderate database homology
`Q338B0`	Oryza sativa subsp. japonica	Heat stress transcription factor A-2c	47.273%	Swiss-Prot	weak database homology

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