TkA04G013640 | RubberDandelionOmics

Gene overview

TkA04G013640

Reference: TK1151 Chr: Chr04 Coordinates: 3394535-3395809 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

768 bp · TkA04G013640|TK1151|cDNA

ATGAGTCAGGAACAACCACAACGACCACAAGTTCAACAAGACCCCATCAAATACGGCGACGTTTTCAACGTCTCCGGCGAGTTAGCAAATAAACCAATCACCCCACAAGATGCCGCCGACATGCAAGTCGCCGAGAACTTGGTTTTCGGGGAGACTCAGAAAGGTGGCCCTGCTGCCGTCATGCAGTTGTCCGCCGCAATTAACGAGAACCGTGGCCTTGTTGGGCACACCGATTATGATCCAGACCAGGGCATCGCCAT...

CDS

Download CDS FASTA

768 bp · TkA04G013640|TK1151|CDS

ATGAGTCAGGAACAACCACAACGACCACAAGTTCAACAAGACCCCATCAAATACGGCGACGTTTTCAACGTCTCCGGCGAGTTAGCAAATAAACCAATCACCCCACAAGATGCCGCCGACATGCAAGTCGCCGAGAACTTGGTTTTCGGGGAGACTCAGAAAGGTGGCCCTGCTGCCGTCATGCAGTTGTCCGCCGCAATTAACGAGAACCGTGGCCTTGTTGGGCACACCGATTATGATCCAGACCAGGGCATCGCCAT...

Protein

Download Protein FASTA

255 aa · TkA04G013640|TK1151|PROTEIN

MSQEQPQRPQVQQDPIKYGDVFNVSGELANKPITPQDAADMQVAENLVFGETQKGGPAAVMQLSAAINENRGLVGHTDYDPDQGIAISDTEFAGHRIVTESVGGKVVGQYVRPNLASSPAPAKLGDDAITIGEALEASALSAGDKPVDEGDAAAIQAAEVRATERNQAVPGGMAAKAQVAANQNVKTLREEGKSQIKLKDVVADATSVLPKDKVATRVDADGVIAAEIRNKPDLATYPGGVASSVAAAAKINQQK

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	`TkA04G013640`
TK1151 ID	TkA04G013640
OH-1004 ID	LXL04_018804
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	66.000
Protein coverage (%)	TK1151 94.118 / OH-1004 81.419 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 TkA04G013640

Location Chr04:3394535-3395809 (-)

Description Similar to Late embryogenesis abundant protein D-34

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g22490`	LEA proteins are late embryonic proteins abundant in higher plant seed embryos.	Arabidopsis thaliana atrab28: a nuclear targeted protein related to germination and toxic cation tolerance.2002 · DOI: 10.1023/a:1016084615014
`At3g22500`	LEA proteins are late embryonic proteins abundant in higher plant seed embryos.	No verified direct reference in this release
`At5g27980`	LEA proteins are late embryonic proteins abundant in higher plant seed embryos.	No verified direct reference in this release
`At1g03120`	LEA proteins are late embryonic proteins abundant in higher plant seed embryos.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_018804 · 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:0006873 intracellular monoatomic ion homeostasis Biological Process

GO:0009845 seed germination Biological Process

GO:0010226 response to lithium ion Biological Process

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

KEGG gene cross-reference

ath:AT1G03120

ath:AT3G22490

ath:AT3G22500

ath:AT5G27980

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.

Cytoplasm0.768

Rank 1 · TkA04G013640 · TK1151

Nucleus0.341

Rank 2 · TkA04G013640 · TK1151

Cell membrane0.104

Rank 3 · TkA04G013640 · TK1151

Mitochondrion0.087

Rank 4 · TkA04G013640 · TK1151

Extracellular0.051

Rank 5 · TkA04G013640 · 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.

PF04927SMP16-70 aa

PF04927SMP129-186 aa

PF04927SMP196-254 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G013640	`PF04927`	SMP	16	70	6.5e-53	177.6
TkA04G013640	`PF04927`	SMP	129	186	6.5e-53	177.6
TkA04G013640	`PF04927`	SMP	196	254	6.5e-53	177.6

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
`Q9LJ97`	Arabidopsis thaliana	sp\|Q9LJ97\|LEA31_ARATH Late embryogenesis abundant protein 31	54.500%	Swiss-Prot	High
`Q9LJ95`	Arabidopsis thaliana	sp\|Q9LJ95\|LEA32_ARATH Late embryogenesis abundant protein 32	51.400%	Swiss-Prot	High
`Q8GWT7`	Arabidopsis thaliana	sp\|Q8GWT7\|LEA47_ARATH Late embryogenesis abundant protein 47	52.200%	Swiss-Prot	Medium
`Q9SA57`	Arabidopsis thaliana	sp\|Q9SA57\|LEA3_ARATH Late embryogenesis abundant protein 3	53.300%	Swiss-Prot	Medium

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