LXL04_002177 | RubberDandelionOmics

Gene overview

LXL04_002177

Reference: OH-1004 Chr: Chr01 Coordinates: 43202365-43203621 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1257 bp · LXL04_002177|LXL04_002177|OH1004|cDNA

ATGCACACTACAGGTAGATATCACTACAGACCGGCGAGAGAGAATCCGTCTTTCTCGTCCTCGTTGCTCGATGAGATCTACCGCTCTATGGATGAACGAGATGGCCGAGAGTTGATGGTTTATAGAGAAGCCACGAGGGAAAAACAGAGCAGTTTCTCCATCAACGGCTACTTTCAAAATGATCGTGAAGCTCGACAACAAATAGCCGGTTTAGGGCGAGCATGCCTGGTTGAGAAATGGATCGACAAGGAAGTGTGCGA...

CDS

Download CDS FASTA

1257 bp · LXL04_002177|LXL04_002177|OH1004|CDS

ATGCACACTACAGGTAGATATCACTACAGACCGGCGAGAGAGAATCCGTCTTTCTCGTCCTCGTTGCTCGATGAGATCTACCGCTCTATGGATGAACGAGATGGCCGAGAGTTGATGGTTTATAGAGAAGCCACGAGGGAAAAACAGAGCAGTTTCTCCATCAACGGCTACTTTCAAAATGATCGTGAAGCTCGACAACAAATAGCCGGTTTAGGGCGAGCATGCCTGGTTGAGAAATGGATCGACAAGGAAGTGTGCGA...

Protein

Download Protein FASTA

418 aa · LXL04_002177|LXL04_002177|OH1004|PROTEIN

MHTTGRYHYRPARENPSFSSSLLDEIYRSMDERDGRELMVYREATREKQSSFSINGYFQNDREARQQIAGLGRACLVEKWIDKEVCEKVVVRRKSGVDFRRNERDSLYFNSSSSSSDSSCGGGFSSSEADSVYGVSSRPKPIRTSTNRHDEYSTREKQRNTYGQKYQIEDYQSKPKHEGKFVRTKSRAMKIYGDLKKVKQPISPGGRLATFLNSLFTTSNGKNTKLSSSSVGDQIDRESKSGNASTCSSASSFSRSCLSK...

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_002177`
TK1151 ID	TkA01G477020
OH-1004 ID	LXL04_002177
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	90.900
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	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_002177

Location Chr01:43202365-43203621 (+)

Description Similar to At3g13980: Protein BIG GRAIN 1-like A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g13980`	Involved in auxin transport.	No verified direct reference in this release
`At1g54200`	Involved in auxin transport.	No verified direct reference in this release
`At5g12050`	Involved in auxin transport.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`UniProt: B8APC7`	Involved in auxin transport.	No verified direct reference in this release
`Os03g0175800`	Involved in auxin transport.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002177 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0007623 circadian rhythm Biological Process

GO:0009630 gravitropism Biological Process

GO:0009733 response to auxin Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0010929 positive regulation of auxin mediated signaling pathway Biological Process

GO:0060918 auxin transport Biological Process

GO:0080113 regulation of seed growth Biological Process

GO:0005634 nucleus Cellular Component

GO:0005886 plasma membrane Cellular Component

KEGG gene cross-reference

ath:AT1G54200

ath:AT3G13980

ath:AT5G12050

dosa:Os03g0175800

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.

Cell membrane0.486

Rank 1 · LXL04_002177 · OH-1004

Nucleus0.385

Rank 2 · LXL04_002177 · OH-1004

Cytoplasm0.335

Rank 3 · LXL04_002177 · OH-1004

Endoplasmic reticulum0.046

Rank 4 · LXL04_002177 · OH-1004

Plastid0.031

Rank 5 · LXL04_002177 · 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.

PF30505.1Big_grain_15-37 aa

PF30505.1Big_grain_1111-281 aa

PF30505.1Big_grain_1363-412 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002177	`PF30505.1`	Big_grain_1	5	37	7e-33	115.4
LXL04_002177	`PF30505.1`	Big_grain_1	111	281	7e-33	115.4
LXL04_002177	`PF30505.1`	Big_grain_1	363	412	7e-33	115.4

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
`Q9LVK2`	Arabidopsis thaliana	Protein BIG GRAIN 1-like A	41.204%	Swiss-Prot	moderate database homology
`Q9SLL2`	Arabidopsis thaliana	Protein BIG GRAIN 1-like B	45.965%	Swiss-Prot	moderate database homology
`Q9LYH0`	Arabidopsis thaliana	Protein BIG GRAIN 1-like D	39.914%	Swiss-Prot	moderate database homology
`B8APC7`	Oryza sativa subsp. indica	Protein BIG GRAIN 1	40.952%	Swiss-Prot	weak database homology
`Q10R09`	Oryza sativa subsp. japonica	Protein BIG GRAIN 1	40.952%	Swiss-Prot	weak database homology

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