LXL04_016171 | RubberDandelionOmics

Gene overview

LXL04_016171

Reference: OH-1004 Chr: Chr03 Coordinates: 113293942-113301342 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

4425 bp · LXL04_016171|LXL04_016171|OH1004|cDNA

ATGGAAGATCTTGAAGCAGCATTAATGTGTACTACAGTTAAGTATCATCCACTTTCTGATTTTTTGACAAATGATGCCAACAAGCCCTTGAACGGGTTTTGTGGTTCAATATACCTTGGTTTTCTGCTTCTTTTATTCATCACATGGCTCGGAATAAATTTCAAAACCAATAATAGCAATAGAGGTCCCAACAATATTCGGGCCTTATATTACAAGCAGACTGTGTTTTGTTGTGTGGTTCTAGTGCTTCTTAACCTCTG...

CDS

Download CDS FASTA

4425 bp · LXL04_016171|LXL04_016171|OH1004|CDS

ATGGAAGATCTTGAAGCAGCATTAATGTGTACTACAGTTAAGTATCATCCACTTTCTGATTTTTTGACAAATGATGCCAACAAGCCCTTGAACGGGTTTTGTGGTTCAATATACCTTGGTTTTCTGCTTCTTTTATTCATCACATGGCTCGGAATAAATTTCAAAACCAATAATAGCAATAGAGGTCCCAACAATATTCGGGCCTTATATTACAAGCAGACTGTGTTTTGTTGTGTGGTTCTAGTGCTTCTTAACCTCTG...

Protein

Download Protein FASTA

1474 aa · LXL04_016171|LXL04_016171|OH1004|PROTEIN

MEDLEAALMCTTVKYHPLSDFLTNDANKPLNGFCGSIYLGFLLLLFITWLGINFKTNNSNRGPNNIRALYYKQTVFCCVVLVLLNLCLCLLNIFYWYRNGRNNENIIISRDSLLGTFVWLFVSVYLHTHVSNFKESTYPFVLRVWWVSFSSISCFSLFLHYVHYKHNRHLAAQFLVFEVLSTFVSLFLCYVGFFDNNEYETITPSTTSSIFSLLTFSWIDPLIAIGYKKPLDLEDIPQLDDVNSARGAFSVIKSRLESEK...

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_016171`
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_016171

Location Chr03:113293942-113301342 (+)

Description Similar to ABCC3: ABC transporter C family member 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g13080`	Pump for glutathione S-conjugates.	An ABC-transporter of Arabidopsis thaliana has both glutathione-conjugate and chlorophyll catabolite transport activity.1998 · DOI: 10.1046/j.1365-313x.1998.00076.x
`At3g13090`	Pump for glutathione S-conjugates.	No verified direct reference in this release
`At3g13100`	Pump for glutathione S-conjugates.	No verified direct reference in this release
`At1g04120`	Pump for glutathione S-conjugates.	The Arabidopsis thaliana ABC transporter AtMRP5 controls root development and stomata movement.2001 · DOI: 10.1093/emboj/20.8.1875 The plant multidrug resistance ABC transporter AtMRP5 is involved in guard cell hormonal signalling and water use.2003 · DOI: 10.1046/j.1365-313x.2003.016012.x Binding of sulfonylurea by AtMRP5, an Arabidopsis multidrug resistance-related protein that functions in salt tolerance.2004 · DOI: 10.1104/pp.103.027045 The Arabidopsis ATP-binding cassette protein AtMRP5/AtABCC5 is a high affinity inositol hexakisphosphate transporter involved in guard cell signaling and phytate storage.2009 · DOI: 10.1074/jbc.m109.030247

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0142800`	ABC transporter that may affect phytic acid transport and compartmentalization.	Mutations of the multi-drug resistance-associated protein ABC transporter gene 5 result in reduction of phytic acid in rice seeds.2009 · DOI: 10.1007/s00122-009-1018-1

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_016171 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009651 response to salt stress Biological Process

GO:0030007 intracellular potassium ion homeostasis Biological Process

GO:0051707 response to other organism Biological Process

GO:0055085 transmembrane transport Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005773 vacuole Cellular Component

GO:0005774 vacuolar membrane Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0016020 membrane Cellular Component

GO:0048046 apoplast Cellular Component

KEGG gene cross-reference

ath:AT1G04120

ath:AT3G13080

ath:AT3G13090

ath:AT3G13100

dosa:Os03g0142800

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 membrane0.335

Rank 1 · LXL04_016171 · OH-1004

Lysosome / Vacuole0.334

Rank 2 · LXL04_016171 · OH-1004

Endoplasmic reticulum0.169

Rank 3 · LXL04_016171 · OH-1004

Cytoplasm0.143

Rank 4 · LXL04_016171 · OH-1004

Golgi apparatus0.102

Rank 5 · LXL04_016171 · 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.

PF00664.29ABC_membrane283-548 aa

PF00005.34ABC_tran617-749 aa

PF00664.29ABC_membrane903-1142 aa

PF00005.34ABC_tran1234-1381 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_016171	`PF00664.29`	ABC_membrane	283	548	3.7e-52	178.4
LXL04_016171	`PF00005.34`	ABC_tran	617	749	4.7e-49	167.2
LXL04_016171	`PF00664.29`	ABC_membrane	903	1142	3.7e-52	178.4
LXL04_016171	`PF00005.34`	ABC_tran	1234	1381	4.7e-49	167.2

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
`Q9LK64`	Arabidopsis thaliana	ABC transporter C family member 3	59.097%	Swiss-Prot	strong database homology
`Q8VZZ4`	Arabidopsis thaliana	ABC transporter C family member 6	55.423%	Swiss-Prot	strong database homology
`Q9LK62`	Arabidopsis thaliana	ABC transporter C family member 7	53.736%	Swiss-Prot	strong database homology
`Q7GB25`	Arabidopsis thaliana	ABC transporter C family member 5	48.864%	Swiss-Prot	moderate database homology
`Q10RX7`	Oryza sativa subsp. japonica	ABC transporter C family member 13	49.391%	Swiss-Prot	moderate database homology

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