LXL04_011762 | RubberDandelionOmics

Gene overview

LXL04_011762

Reference: OH-1004 Chr: Chr02 Coordinates: 171223355-171224764 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

927 bp · LXL04_011762|LXL04_011762|OH1004|cDNA

ATGGCGACCAAATCACTGAAATCCAAGAAACCCCCATCAACACCATCACCGCCACCAAACACTTCATCAAGATCTTCATCTCTTTCTTCCCATCTCGCCATGATTGAACTCAAACACAGAATCTTAACTTCCCTCTCCAAGCTCTCCGACCGCGACACCCACCAGATCGCCGTCGAAGACCTTGAAAAAATCATCCAAACTCTCTCCCCTGACGGTATCACAATGCTCCTCAACTCACTCTACGACGCCACCAACAACGA...

CDS

Download CDS FASTA

825 bp · LXL04_011762|LXL04_011762|OH1004|CDS

ATGGCGACCAAATCACTGAAATCCAAGAAACCCCCATCAACACCATCACCGCCACCAAACACTTCATCAAGATCTTCATCTCTTTCTTCCCATCTCGCCATGATTGAACTCAAACACAGAATCTTAACTTCCCTCTCCAAGCTCTCCGACCGCGACACCCACCAGATCGCCGTCGAAGACCTTGAAAAAATCATCCAAACTCTCTCCCCTGACGGTATCACAATGCTCCTCAACTCACTCTACGACGCCACCAACAACGA...

Protein

Download Protein FASTA

274 aa · LXL04_011762|LXL04_011762|OH1004|PROTEIN

MATKSLKSKKPPSTPSPPPNTSSRSSSLSSHLAMIELKHRILTSLSKLSDRDTHQIAVEDLEKIIQTLSPDGITMLLNSLYDATNNDANKPAVKKEAIRLLYFFCATHNESAASHLTKIIAHIVKRLKDSDSGVKDACRESIGQISSLYLRGEGSENIGPVVSLFVKPLFEALNDQNKGVQAGSAMCMAKMVEMASDPPISAFQKLCARICKYLNNPNFLAKAALLQVVSSLSQSIINTADALNALALHSSNLIIGKTAS...

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_011762`
TK1151 ID	TkA01G579820
OH-1004 ID	LXL04_011762
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	99.300
Protein coverage (%)	TK1151 87.179 / OH-1004 99.270 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_011762

Location Chr02:171223355-171224764 (+)

Description Similar to TOR1: Microtubule-associated protein TORTIFOLIA1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g27060`	Plant-specific microtubule-associated protein (MAP) that regulates the orientation of cortical microtubules and the direction of organ growth.	Arabidopsis SPIRAL2 promotes uninterrupted microtubule growth by suppressing the pause state of microtubule dynamics.2008 · DOI: 10.1242/jcs.030221
`At1g50890`	Plant-specific microtubule-associated protein (MAP) that regulates the orientation of cortical microtubules and the direction of organ growth.	Arabidopsis SPIRAL2 promotes uninterrupted microtubule growth by suppressing the pause state of microtubule dynamics.2008 · DOI: 10.1242/jcs.030221
`At2g07170`	TORTIFOLIA1-like protein 2.	No verified direct reference in this release
`At1g27210`	TORTIFOLIA1-like protein 4.	No verified direct reference in this release
`At1g59850`	TORTIFOLIA1-like protein 5.	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_011762 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009826 unidimensional cell growth Biological Process

GO:0010031 circumnutation Biological Process

GO:0170002 halotropism Biological Process

GO:0005634 nucleus Cellular Component

GO:0005874 microtubule Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0010005 cortical microtubule, transverse to long axis Cellular Component

GO:0055028 cortical microtubule Cellular Component

GO:0008017 microtubule binding Molecular Function

KEGG gene cross-reference

ath:AT1G27210

ath:AT1G50890

ath:AT1G59850

ath:AT2G07170

ath:AT4G27060

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.

Nucleus0.530

Rank 1 · LXL04_011762 · OH-1004

Cytoplasm0.416

Rank 2 · LXL04_011762 · OH-1004

Cell membrane0.092

Rank 3 · LXL04_011762 · OH-1004

Endoplasmic reticulum0.057

Rank 4 · LXL04_011762 · OH-1004

Lysosome / Vacuole0.035

Rank 5 · LXL04_011762 · 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.

PF23271.2HEAT_GCN127-145 aa

PF24714.2TOR1L1_N36-235 aa

PF24987.2HEAT_EF3_N49-140 aa

PF24714.2TOR1L1_N239-274 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_011762	`PF23271.2`	HEAT_GCN1	27	145	4.7e-09	37.3
LXL04_011762	`PF24714.2`	TOR1L1_N	36	235	3.5e-87	293.0
LXL04_011762	`PF24987.2`	HEAT_EF3_N	49	140	3.7e-10	40.7
LXL04_011762	`PF24714.2`	TOR1L1_N	239	274	3.5e-87	293.0

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9T041`	Arabidopsis thaliana	Microtubule-associated protein TORTIFOLIA1	53.020%	Swiss-Prot	strong database homology
`F4I6M4`	Arabidopsis thaliana	TORTIFOLIA1-like protein 1	49.451%	Swiss-Prot	moderate database homology
`F4IK92`	Arabidopsis thaliana	TORTIFOLIA1-like protein 2	36.029%	Swiss-Prot	moderate database homology
`Q93ZH1`	Arabidopsis thaliana	TORTIFOLIA1-like protein 4	31.461%	Swiss-Prot	moderate database homology
`Q9XIE4`	Arabidopsis thaliana	TORTIFOLIA1-like protein 5	33.028%	Swiss-Prot	moderate database homology

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