LXL04_010120 | RubberDandelionOmics

Gene overview

LXL04_010120

Reference: OH-1004 Chr: Chr02 Coordinates: 140615268-140630067 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

4242 bp · LXL04_010120|LXL04_010120|OH1004|cDNA

ATGAAGAAGATGGGATTTACTAACAAGTGGGTGGCCTGGATTAAAGCAGCATTGTCTTCTTCGTGGGCTTCTGTTTTGTTAAATGGGGCGCCAACGGAGGAGTTTCGTTTACAGCGCGGTCTCAGACAGGGTGATCCTTTGTCGCCATTTCTTTTTGTATTAGCGATGGAGGGGTTTCATATCGCTCTTGAGGAGGTTGCTAAAGCCGGGGTGTTTCGTGGGGTTTCGATTGGGTGCGTCGGTCTTCATGTGTCTCATTT...

CDS

Download CDS FASTA

4242 bp · LXL04_010120|LXL04_010120|OH1004|CDS

ATGAAGAAGATGGGATTTACTAACAAGTGGGTGGCCTGGATTAAAGCAGCATTGTCTTCTTCGTGGGCTTCTGTTTTGTTAAATGGGGCGCCAACGGAGGAGTTTCGTTTACAGCGCGGTCTCAGACAGGGTGATCCTTTGTCGCCATTTCTTTTTGTATTAGCGATGGAGGGGTTTCATATCGCTCTTGAGGAGGTTGCTAAAGCCGGGGTGTTTCGTGGGGTTTCGATTGGGTGCGTCGGTCTTCATGTGTCTCATTT...

Protein

Download Protein FASTA

1413 aa · LXL04_010120|LXL04_010120|OH1004|PROTEIN

MKKMGFTNKWVAWIKAALSSSWASVLLNGAPTEEFRLQRGLRQGDPLSPFLFVLAMEGFHIALEEVAKAGVFRGVSIGCVGLHVSHFLYADDVVLLCDWGVENARRIIRIMRVFHLASGLKINLLKSKLIGVGVDYEEVQEVADLIGCSATRIPFVYLGVPIGGNMNRVDAWKPMVDRFVAKMSVWEAKLLSIGGRLTLIKAVLGSLAIYYMSIYKVPDMVLKMLEALRARFFWGADMGERKLQWIAWSKILPSKEAGGL...

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_010120`
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_010120

Location Chr02:140615268-140630067 (+)

Description Similar to ENT3: Equilibrative nucleotide transporter 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g05120`	Nucleoside transporter that functions as a pyrimidine nucleoside carrier in all organs.	Equilibrative nucleoside transporters of Arabidopsis thaliana. cDNA cloning, expression pattern, and analysis of transport activities.2003 · DOI: 10.1074/jbc.m304768200 Characterization of three novel members of the Arabidopsis thaliana equilibrative nucleoside transporter (ENT) family.2004 · DOI: 10.1042/bj20040389 The fluorouridine insensitive 1 (fur1) mutant is defective in equilibrative nucleoside transporter 3 (ENT3), and thus represents an important pyrimidine nucleoside uptake system in Arabidopsis thaliana.2007 · DOI: 10.1111/j.1365-313x.2006.02998.x Nucleoside transport across the plasma membrane mediated by equilibrative nucleoside transporter 3 influences metabolism of Arabidopsis seedlings.2012 · DOI: 10.1111/j.1438-8677.2012.00562.x
`At4g05140`	May be involved in nucleoside transport.	No verified direct reference in this release
`At4g05110`	Nucleoside transporter that can mediate uptake of adenosine, uridine, guanosine or cytidine when expressed in a heterologous system (yeast).	Characterization of three novel members of the Arabidopsis thaliana equilibrative nucleoside transporter (ENT) family.2004 · DOI: 10.1042/bj20040389
`At4g05130`	Nucleoside transporter that can mediate uptake of adenosine, uridine, guanosine or cytidine when expressed in a heterologous system (yeast).	Characterization of three novel members of the Arabidopsis thaliana equilibrative nucleoside transporter (ENT) family.2004 · DOI: 10.1042/bj20040389
`At1g61630`	Nucleoside transporter that can mediate uptake of adenosine, uridine, guanosine or cytidine when expressed in a heterologous system (yeast).	Characterization of three novel members of the Arabidopsis thaliana equilibrative nucleoside transporter (ENT) family.2004 · DOI: 10.1042/bj20040389

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_010120 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0015858 nucleoside transport Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0005337 nucleoside transmembrane transporter activity Molecular Function

KEGG gene cross-reference

ath:AT4G05110

ath:AT4G05120

ath:AT4G05140

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 membrane0.533

Rank 1 · LXL04_010120 · OH-1004

Endoplasmic reticulum0.182

Rank 2 · LXL04_010120 · OH-1004

Lysosome / Vacuole0.178

Rank 3 · LXL04_010120 · OH-1004

Cytoplasm0.085

Rank 4 · LXL04_010120 · OH-1004

Golgi apparatus0.079

Rank 5 · LXL04_010120 · 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.

PF00078.33RVT_16-160 aa

PF13966.12zf-RVT418-482 aa

PF01733.25Nucleoside_tran697-776 aa

PF01733.25Nucleoside_tran809-956 aa

PF01733.25Nucleoside_tran1100-1391 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_010120	`PF00078.33`	RVT_1	6	160	1e-12	49.1
LXL04_010120	`PF13966.12`	zf-RVT	418	482	1.6e-11	45.4
LXL04_010120	`PF01733.25`	Nucleoside_tran	697	776	8.4e-57	193.6
LXL04_010120	`PF01733.25`	Nucleoside_tran	809	956	8.4e-57	193.6
LXL04_010120	`PF01733.25`	Nucleoside_tran	1100	1391	8.4e-57	193.6

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
`Q9M0Y3`	Arabidopsis thaliana	Equilibrative nucleotide transporter 3	64.439%	Swiss-Prot	weak database homology
`Q9M0Y1`	Arabidopsis thaliana	Equilibrative nucleotide transporter 5	62.830%	Swiss-Prot	weak database homology
`Q944N8`	Arabidopsis thaliana	Equilibrative nucleotide transporter 6	61.871%	Swiss-Prot	weak database homology
`Q9M0Y2`	Arabidopsis thaliana	Equilibrative nucleotide transporter 4	59.666%	Swiss-Prot	weak database homology
`Q944P0`	Arabidopsis thaliana	Equilibrative nucleotide transporter 7	56.010%	Swiss-Prot	weak database homology

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