TkA07G051860 | RubberDandelionOmics

Gene overview

TkA07G051860

Reference: TK1151 Chr: Chr07 Coordinates: 13760237-13760770 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

429 bp · TkA07G051860|TK1151|cDNA

ATGTCAAGTAACATACCAAAAGATCCATCAGAAGGGACTTCCAGATCTGCAACAGGTGATCAGAGTCTGCATCCCGCACCTCTAAGTCGTTATGAATCCCAAAAACGACGTGACTGGAACACTTTTGGGCAATATCTAAAGAACCAAAGGCCTCCCGTCGCGCTTTCCCAGTGCAACTTTAGCCATGTTCTGGAATTCCTTCGATACCTTGATCAATTTGGAAAAAGGCGATTAAGAGCCGCCTACGAAGAGAACGGCGG...

CDS

Download CDS FASTA

429 bp · TkA07G051860|TK1151|CDS

ATGTCAAGTAACATACCAAAAGATCCATCAGAAGGGACTTCCAGATCTGCAACAGGTGATCAGAGTCTGCATCCCGCACCTCTAAGTCGTTATGAATCCCAAAAACGACGTGACTGGAACACTTTTGGGCAATATCTAAAGAACCAAAGGCCTCCCGTCGCGCTTTCCCAGTGCAACTTTAGCCATGTTCTGGAATTCCTTCGATACCTTGATCAATTTGGAAAAAGGCGATTAAGAGCCGCCTACGAAGAGAACGGCGG...

Protein

Download Protein FASTA

142 aa · TkA07G051860|TK1151|PROTEIN

MSSNIPKDPSEGTSRSATGDQSLHPAPLSRYESQKRRDWNTFGQYLKNQRPPVALSQCNFSHVLEFLRYLDQFGKRRLRAAYEENGGSPEKNPFGNGAIRIYLREVKECQAKARGIPYKKKKKRKHQIKANEEVKASKLQAT

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	`TkA07G051860`
TK1151 ID	TkA07G051860
OH-1004 ID	LXL04_027344
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	79.700
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

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

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Basic Information and Functional Annotation

Gene ID TkA07G051860

Location Chr07:13760237-13760770 (+)

Description Similar to LSH10: Protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 10

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g42610`	Probable transcription regulator that acts as a developmental regulator by promoting cell growth in response to light.	No verified direct reference in this release
`At1g07090`	Probable transcription regulator that acts as a developmental regulator by promoting cell growth in response to light.	No verified direct reference in this release
`At3g23290`	Probable transcription regulator that acts as a developmental regulator by promoting cell growth in response to light (By similarity).	CUP-SHAPED COTYLEDON1 transcription factor activates the expression of LSH4 and LSH3, two members of the ALOG gene family, in shoot organ boundary cells.2011 · DOI: 10.1111/j.1365-313x.2011.04571.x

Rice

Reference gene ID	Possible function	Papers / DOI
`UniProt: A2XED8`	Probable transcription regulator that acts as a developmental regulator by promoting cell growth in response to light.	No verified direct reference in this release
`Os01g0828900`	Probable transcription regulator that acts as a developmental regulator by promoting cell growth in response to light.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_027344 · 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:0009299 mRNA transcription Biological Process

GO:0009416 response to light stimulus Biological Process

GO:0090698 post-embryonic plant morphogenesis Biological Process

GO:0005634 nucleus Cellular Component

GO:0003677 DNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G07090

ath:AT1G78815

ath:AT2G42610

ath:AT4G18610

ath:AT5G58500

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.

Nucleus0.920

Rank 1 · TkA07G051860 · TK1151

Cytoplasm0.180

Rank 2 · TkA07G051860 · TK1151

Mitochondrion0.026

Rank 3 · TkA07G051860 · TK1151

Cell membrane0.014

Rank 4 · TkA07G051860 · TK1151

Extracellular0.008

Rank 5 · TkA07G051860 · 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.

PF04852ALOG_dom22-77 aa

PF04852ALOG_dom77-108 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA07G051860	`PF04852`	ALOG_dom	22	77	1.9e-35	122.5
TkA07G051860	`PF04852`	ALOG_dom	77	108	1.9e-35	122.5

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
`Q9S7R3`	Arabidopsis thaliana	sp\|Q9S7R3\|LSH10_ARATH Protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 10	60.300%	Swiss-Prot	Medium
`Q9LMK2`	Arabidopsis thaliana	sp\|Q9LMK2\|LSH6_ARATH Protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 6	55.600%	Swiss-Prot	High
`Q9LW68`	Arabidopsis thaliana	sp\|Q9LW68\|LSH4_ARATH Protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 4	56.600%	Swiss-Prot	Medium
`A2XED8`	Oryza sativa subsp. indica	sp\|A2XED8\|G1L7_ORYSI Protein G1-like7	54.300%	Swiss-Prot	High
`Q941W1`	Oryza sativa subsp. japonica	sp\|Q941W1\|G1L7_ORYSJ Protein G1-like7	54.300%	Swiss-Prot	High

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