LXL04_004526 | RubberDandelionOmics

Gene overview

LXL04_004526

Reference: OH-1004 Chr: Chr01 Coordinates: 139243161-139244929 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1688 bp · LXL04_004526|LXL04_004526|OH1004|cDNA

CCTATATATATTAACAATCCGTCCATACTCCAAAAATATCTCACCAGCCCTAGATCAAGAACAAGTATCATACAGAGTATTAATTATATACGATGCGTGATCAAATCGAAGGATCTCCGGGGACTTCCATGCATGGAGTCACCGGAAGGGAGCCGGTACTGGCCTTCTCTGTCGCTTCTCCGATGGTACCCACTGATACCACCGCCAAATTCGACCTTCCGGTGGACTCAGAACACAAGGCGAAAGTGTTCAAGCTTTTC...

CDS

Download CDS FASTA

1596 bp · LXL04_004526|LXL04_004526|OH1004|CDS

ATGCGTGATCAAATCGAAGGATCTCCGGGGACTTCCATGCATGGAGTCACCGGAAGGGAGCCGGTACTGGCCTTCTCTGTCGCTTCTCCGATGGTACCCACTGATACCACCGCCAAATTCGACCTTCCGGTGGACTCAGAACACAAGGCGAAAGTGTTCAAGCTTTTCTCCTTGGCCAATCCTCACATGAGAACCTTCCATCTCTCCTGGCTGTCGTTCTTCACCACCTTCGTCTCCACCTTCGCGGCGGCTCCACTTGT...

Protein

Download Protein FASTA

531 aa · LXL04_004526|LXL04_004526|OH1004|PROTEIN

MRDQIEGSPGTSMHGVTGREPVLAFSVASPMVPTDTTAKFDLPVDSEHKAKVFKLFSLANPHMRTFHLSWLSFFTTFVSTFAAAPLVPIIRDNLNLTKSDIGNAGVASVSGSIFSRLVMGAVCDMLGPRYGCAFLIMLSAPTVFCMALVEDATGYIVVRFMIGFSLATFVSCQYWMSTMFNGKIIGLVNGTAAGWGNMGGGATQLLMPVLFEIIQKAGATPFTAWRIAFFIPGWMNVIMGILVLTMGQDLPDGNLGALQK...

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_004526`
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_004526

Location Chr01:139243161-139244929 (-)

Description Similar to NRT2.4: High affinity nitrate transporter 2.4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g60770`	Involved in high-affinity nitrate transport.	Disruption of the nitrate transporter genes AtNRT2.1 and AtNRT2.2 restricts growth at low external nitrate concentration.2004 · DOI: 10.1007/s00425-004-1266-x
`At1g08090`	Involved in nitrate transport, but does not seem to be able to mediate transport by its own.	Major alterations of the regulation of root NO(3)(-) uptake are associated with the mutation of Nrt2.1 and Nrt2.2 genes in Arabidopsis.2001 · DOI: 10.1104/pp.127.1.262 Disruption of the nitrate transporter genes AtNRT2.1 and AtNRT2.2 restricts growth at low external nitrate concentration.2004 · DOI: 10.1007/s00425-004-1266-x The putative high-affinity nitrate transporter NRT2.1 represses lateral root initiation in response to nutritional cues.2005 · DOI: 10.1073/pnas.0504219102 A central role for the nitrate transporter NRT2.1 in the integrated morphological and physiological responses of the root system to nitrogen limitation in Arabidopsis.2006 · DOI: 10.1104/pp.105.075721 Dissection of the AtNRT2.1:AtNRT2.2 inducible high-affinity nitrate transporter gene cluster.2007 · DOI: 10.1104/pp.106.091223 Nitrate signaling and the two component high affinity uptake system in Arabidopsis.2007 · DOI: 10.4161/psb.2.4.3870
`At1g08100`	Involved in high-affinity nitrate transport.	Major alterations of the regulation of root NO(3)(-) uptake are associated with the mutation of Nrt2.1 and Nrt2.2 genes in Arabidopsis.2001 · DOI: 10.1104/pp.127.1.262 Disruption of the nitrate transporter genes AtNRT2.1 and AtNRT2.2 restricts growth at low external nitrate concentration.2004 · DOI: 10.1007/s00425-004-1266-x Dissection of the AtNRT2.1:AtNRT2.2 inducible high-affinity nitrate transporter gene cluster.2007 · DOI: 10.1104/pp.106.091223

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0112600`	Involved in nitrate transport, but does not seem to be able to mediate transport by its own.	Spatial expression and regulation of rice high-affinity nitrate transporters by nitrogen and carbon status.2011 · DOI: 10.1093/jxb/erq403 Rice OsNAR2.1 interacts with OsNRT2.1, OsNRT2.2 and OsNRT2.3a nitrate transporters to provide uptake over high and low concentration ranges.2011 · DOI: 10.1111/j.1365-3040.2011.02335.x
`Os02g0112100`	Involved in nitrate transport, but does not seem to be able to mediate transport by its own.	Spatial expression and regulation of rice high-affinity nitrate transporters by nitrogen and carbon status.2011 · DOI: 10.1093/jxb/erq403 Rice OsNAR2.1 interacts with OsNRT2.1, OsNRT2.2 and OsNRT2.3a nitrate transporters to provide uptake over high and low concentration ranges.2011 · DOI: 10.1111/j.1365-3040.2011.02335.x

Functional annotation source

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Functional annotation source: OH1004 · LXL04_004526 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0010167 response to nitrate Biological Process

GO:0015706 nitrate transmembrane transport Biological Process

GO:0042128 nitrate assimilation Biological Process

GO:0048527 lateral root development Biological Process

GO:0071249 cellular response to nitrate Biological Process

GO:0005886 plasma membrane Cellular Component

GO:0016020 membrane Cellular Component

GO:0015112 nitrate transmembrane transporter activity Molecular Function

KEGG gene cross-reference

ath:AT1G08090

ath:AT1G08100

ath:AT5G60770

dosa:Os02g0112100

dosa:Os02g0112600

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.

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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 membrane0.630

Rank 1 · LXL04_004526 · OH-1004

Cytoplasm0.175

Rank 2 · LXL04_004526 · OH-1004

Lysosome / Vacuole0.109

Rank 3 · LXL04_004526 · OH-1004

Endoplasmic reticulum0.096

Rank 4 · LXL04_004526 · OH-1004

Golgi apparatus0.071

Rank 5 · LXL04_004526 · 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.

PF07690.22MFS_170-426 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_004526	`PF07690.22`	MFS_1	70	426	3.6e-19	69.6

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9FJH8`	Arabidopsis thaliana	High affinity nitrate transporter 2.4	77.524%	Swiss-Prot	strong database homology
`O82811`	Arabidopsis thaliana	High-affinity nitrate transporter 2.1	76.000%	Swiss-Prot	strong database homology
`Q9LMZ9`	Arabidopsis thaliana	High-affinity nitrate transporter 2.2	73.137%	Swiss-Prot	strong database homology
`P0DKH0`	Oryza sativa subsp. japonica	High-affinity nitrate transporter 2.2	73.084%	Swiss-Prot	strong database homology
`P0DKG9`	Oryza sativa subsp. japonica	High-affinity nitrate transporter 2.1	73.084%	Swiss-Prot	strong database homology

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