LXL04_014945 | RubberDandelionOmics

Gene overview

LXL04_014945

Reference: OH-1004 Chr: Chr03 Coordinates: 60124638-60132091 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1707 bp · LXL04_014945|LXL04_014945|OH1004|cDNA

ATGGCTAAACTGCAGTTTAGTGTTACTTCCTTTCTAGTTGAATTCAGAAAAGGAAGTGGCGTTGTAGGAGATGTTGCTATAGATGAATTCAGGTTAGCATTCATTCCATTCAAATCAAGATATGTAGGTGCTTCAGAGTTGATTGATCATCCTAGAAAAATTGCGCTACATTATCTTTTTGGACCATTTTTTCTGGACTTATTTATTGTACTACCGATTCCTCAGATAATTTCATTAATTTTCCTACCAAAAGCCATTGC...

CDS

Download CDS FASTA

1707 bp · LXL04_014945|LXL04_014945|OH1004|CDS

ATGGCTAAACTGCAGTTTAGTGTTACTTCCTTTCTAGTTGAATTCAGAAAAGGAAGTGGCGTTGTAGGAGATGTTGCTATAGATGAATTCAGGTTAGCATTCATTCCATTCAAATCAAGATATGTAGGTGCTTCAGAGTTGATTGATCATCCTAGAAAAATTGCGCTACATTATCTTTTTGGACCATTTTTTCTGGACTTATTTATTGTACTACCGATTCCTCAGATAATTTCATTAATTTTCCTACCAAAAGCCATTGC...

Protein

Download Protein FASTA

568 aa · LXL04_014945|LXL04_014945|OH1004|PROTEIN

MAKLQFSVTSFLVEFRKGSGVVGDVAIDEFRLAFIPFKSRYVGASELIDHPRKIALHYLFGPFFLDLFIVLPIPQIISLIFLPKAIASSGANYTNNLLRVVVLIQYVPRLYRCMDFSPKVYESQIIPTIFVRNLLTLLIASHVAGSLWYLLGLQRLNQCLVDACHSWGITNCMKFMDCGNENDFHAFEGFYRWNDWKQNENSSVCFTEDGFPYGVYAKVINLTAQDSRITRYMYSFFWGFQKQLSTLAGNLTPSYSVWEV...

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_014945`
TK1151 ID	TkA02G381810
OH-1004 ID	LXL04_014945
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	89.000
Protein coverage (%)	TK1151 100.000 / OH-1004 25.176 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_014945

Location Chr03:60124638-60132091 (+)

Description Similar to CNGC20: Probable cyclic nucleotide-gated ion channel 20, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g17700`	Probable cyclic nucleotide-gated ion channel.	No verified direct reference in this release
`At3g17690`	Putative cyclic nucleotide-gated ion channel.	No verified direct reference in this release
`At2g23980`	Probable cyclic nucleotide-gated ion channel.	No verified direct reference in this release
`At5g57940`	Probable cyclic nucleotide-gated ion channel.	No verified direct reference in this release
`At4g30560`	Putative cyclic nucleotide-gated ion channel.	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_014945 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009408 response to heat Biological Process

GO:0009624 response to nematode Biological Process

GO:0033198 response to ATP Biological Process

GO:0080027 response to herbivore Biological Process

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009535 chloroplast thylakoid membrane Cellular Component

GO:0035618 root hair Cellular Component

GO:0071944 cell periphery Cellular Component

GO:0005216 monoatomic ion channel activity Molecular Function

GO:0005223 intracellularly cGMP-activated cation channel activity Molecular Function

KEGG gene cross-reference

ath:AT2G23980

ath:AT3G17690

ath:AT3G17700

ath:AT4G30560

ath:AT5G57940

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.

Cell membrane0.805

Rank 1 · LXL04_014945 · OH-1004

Cytoplasm0.096

Rank 2 · LXL04_014945 · OH-1004

Endoplasmic reticulum0.094

Rank 3 · LXL04_014945 · OH-1004

Lysosome / Vacuole0.049

Rank 4 · LXL04_014945 · OH-1004

Nucleus0.038

Rank 5 · LXL04_014945 · OH-1004

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.

PF00520.38Ion_trans55-287 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_014945	`PF00520.38`	Ion_trans	55	287	4e-10	40.0

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
`Q9LD37`	Arabidopsis thaliana	Probable cyclic nucleotide-gated ion channel 20, chloroplastic	48.857%	Swiss-Prot	moderate database homology
`Q9LDR2`	Arabidopsis thaliana	Putative cyclic nucleotide-gated ion channel 19	42.775%	Swiss-Prot	moderate database homology
`O82226`	Arabidopsis thaliana	Probable cyclic nucleotide-gated ion channel 6	35.524%	Swiss-Prot	moderate database homology
`Q8RWS9`	Arabidopsis thaliana	Probable cyclic nucleotide-gated ion channel 5	35.404%	Swiss-Prot	moderate database homology
`Q9M0A4`	Arabidopsis thaliana	Putative cyclic nucleotide-gated ion channel 9	34.711%	Swiss-Prot	moderate database homology

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