LXL04_010939 | RubberDandelionOmics

Gene overview

LXL04_010939

Reference: OH-1004 Chr: Chr02 Coordinates: 155358594-155360635 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1182 bp · LXL04_010939|LXL04_010939|OH1004|cDNA

ATGGCAAAAAGAAGATGGCTCAGTTTTCTCAAGAGGTTCTTCATCTCCGAAACATGTCAAAACAGAGGAAAGgagaagaagaagatatgGGTGTTCAGGAGGCATAAACTCAAGAGGTTAACGTCACAATCAGCACCTTTAGAGAGACCGAAATCCGAAGAGGAAATAGTGAACCCTGTGACTCAACAAGTTGATGAACATAAACAAGTATCAGATGGTAATATTCAATCTAATGAAAGGGAAATTGATGCAGCCATCAA...

CDS

Download CDS FASTA

1182 bp · LXL04_010939|LXL04_010939|OH1004|CDS

ATGGCAAAAAGAAGATGGCTCAGTTTTCTCAAGAGGTTCTTCATCTCCGAAACATGTCAAAACAGAGGAAAGGAGAAGAAGAAGATATGGGTGTTCAGGAGGCATAAACTCAAGAGGTTAACGTCACAATCAGCACCTTTAGAGAGACCGAAATCCGAAGAGGAAATAGTGAACCCTGTGACTCAACAAGTTGATGAACATAAACAAGTATCAGATGGTAATATTCAATCTAATGAAAGGGAAATTGATGCAGCCATCAA...

Protein

Download Protein FASTA

393 aa · LXL04_010939|LXL04_010939|OH1004|PROTEIN

MAKRRWLSFLKRFFISETCQNRGKEKKKIWVFRRHKLKRLTSQSAPLERPKSEEEIVNPVTQQVDEHKQVSDGNIQSNEREIDAAIKIQTAFRGLLARKALRALKGLVRLQAIIRGHLVRRQAVTTLKRLQSVVNIHSQACAKRIQVLDYTSHNNYQEYRGKDIKIDVNSQKRWDDSILTREEEYAMLYSKREAAMKRERIKEYAFNHRMSSESEQSKVNGKWRYWLEHWVDTQLAKREDLQNIAKKEEFETQKVKLRNL...

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_010939`
TK1151 ID	TkA03G556990
OH-1004 ID	LXL04_010939
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.700
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	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_010939

Location Chr02:155358594-155360635 (+)

Description Similar to IQD14: Protein IQ-DOMAIN 14

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g13460`	May be involved in cooperative interactions with calmodulins or calmodulin-like proteins (By similarity).	No verified direct reference in this release
`At3g59690`	May be involved in cooperative interactions with calmodulins or calmodulin-like proteins (By similarity).	No verified direct reference in this release
`At5g03960`	May be involved in cooperative interactions with calmodulins or calmodulin-like proteins (By similarity).	No verified direct reference in this release
`At2g43680`	May be involved in cooperative interactions with calmodulins or calmodulin-like proteins (By similarity).	No verified direct reference in this release
`At3g52290`	May be involved in cooperative interactions with calmodulins or calmodulin-like proteins (By similarity).	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_010939 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009834 plant-type secondary cell wall biogenesis Biological Process

GO:0010089 xylem development Biological Process

GO:0051592 response to calcium ion Biological Process

GO:2000652 regulation of secondary cell wall biogenesis Biological Process

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0005856 cytoskeleton Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0055028 cortical microtubule Cellular Component

GO:0005516 calmodulin binding Molecular Function

KEGG gene cross-reference

ath:AT2G43680

ath:AT3G52290

ath:AT3G59690

ath:AT5G03960

ath:AT5G13460

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.

Cytoplasm0.499

Rank 1 · LXL04_010939 · OH-1004

Nucleus0.359

Rank 2 · LXL04_010939 · OH-1004

Cell membrane0.266

Rank 3 · LXL04_010939 · OH-1004

Endoplasmic reticulum0.048

Rank 4 · LXL04_010939 · OH-1004

Plastid0.035

Rank 5 · LXL04_010939 · 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.

PF00612.34IQ83-102 aa

PF13178.12DUF4005292-328 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_010939	`PF00612.34`	IQ	83	102	3e-07	30.3
LXL04_010939	`PF13178.12`	DUF4005	292	328	1.2e-08	36.1

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
`Q9LYR0`	Arabidopsis thaliana	Protein IQ-DOMAIN 11	46.472%	Swiss-Prot	moderate database homology
`Q9M199`	Arabidopsis thaliana	Protein IQ-DOMAIN 13	32.721%	Swiss-Prot	moderate database homology
`A0A1P8BH03`	Arabidopsis thaliana	Protein IQ-DOMAIN 12	31.865%	Swiss-Prot	moderate database homology
`Q8LPG9`	Arabidopsis thaliana	Protein IQ-DOMAIN 14	33.571%	Swiss-Prot	moderate database homology
`Q9FT53`	Arabidopsis thaliana	Protein IQ-DOMAIN 3	38.217%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card