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Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

LXL04_010703
Reference: OH-1004 Chr: Chr02 Coordinates: 151873388-151885656 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

3603 bp · LXL04_010703|LXL04_010703|OH1004|cDNA

ATGGCTTCAATGGTGTCAACATGGCTCATGATTGATTACTGGATGATTCAATGGGCGCAGATCCTAATGATCGAAGCTCAAGTTGTGACCAAGTACACATTCGTTGCATTTTACAGGGATTTAATTCGTTGCAAGAGTATGGACCTTTTACAAACTGAATCAGAGGGTTCAAATCAAACTGTTTCTACACAATCATCATTAATCAACGGTCTCCCAAACGACATCGCTCTAACCTGTCTAGCAAGGATTCCTCGCAGATA...

CDS

Download CDS FASTA

3603 bp · LXL04_010703|LXL04_010703|OH1004|CDS

ATGGCTTCAATGGTGTCAACATGGCTCATGATTGATTACTGGATGATTCAATGGGCGCAGATCCTAATGATCGAAGCTCAAGTTGTGACCAAGTACACATTCGTTGCATTTTACAGGGATTTAATTCGTTGCAAGAGTATGGACCTTTTACAAACTGAATCAGAGGGTTCAAATCAAACTGTTTCTACACAATCATCATTAATCAACGGTCTCCCAAACGACATCGCTCTAACCTGTCTAGCAAGGATTCCTCGCAGATA...

Protein

Download Protein FASTA

1200 aa · LXL04_010703|LXL04_010703|OH1004|PROTEIN

MASMVSTWLMIDYWMIQWAQILMIEAQVVTKYTFVAFYRDLIRCKSMDLLQTESEGSNQTVSTQSSLINGLPNDIALTCLARIPRRYHSLLKCVSKSWRDLVSSKQWHTYRQKHNLTETWIYALCKDKSEQLCCYVLDPNSPKKGWKRIPDLPPNCLKRKGVGFEVLGKNLYLLGGCGWIEDATDEVYCFDATRNSWTQASPLSTARCYFACESIDDKLYAIGGLGSKSSDPHSWDTFDSKSNTWTSHVDPNVVPEIEDS...

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.

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ID Mapping

Input IDLXL04_010703
TK1151 IDTkA03G544470
OH-1004 IDLXL04_010703
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)100.000
Protein coverage (%)TK1151 100.000 / OH-1004 96.167
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 versionOH-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 IDLXL04_010703
LocationChr02:151873388-151885656 (-)
DescriptionSimilar to PYRD: Riboflavin biosynthesis protein PYRD, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g20960 Monofunctional pyrimidine deaminase involved in the riboflavin biosynthesis pathway.
Evolution of vitamin B2 biosynthesis: structural and functional similarity between pyrimidine deaminases of eubacterial and plant origin.2004 · DOI: 10.1074/jbc.m404406200
Identification and characterization of the missing pyrimidine reductase in the plant riboflavin biosynthesis pathway.2013 · DOI: 10.1104/pp.112.208488
At3g61350 F-box/kelch-repeat protein SKIP4. No verified direct reference in this release
At4g18950 Serine/threonine protein kinase that phosphorylates proteins on serine and threonine residues (By similarity). No verified direct reference in this release
At1g14000 Serine/threonine protein kinase which may function as an adapter protein for BRL2. 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_010703 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0007165 signal transduction Biological Process
GO:0007229 integrin-mediated signaling pathway Biological Process
GO:0009231 riboflavin biosynthetic process Biological Process
GO:0009409 response to cold Biological Process
GO:0009637 response to blue light Biological Process
GO:0009733 response to auxin Biological Process
GO:0009734 auxin-activated signaling pathway Biological Process
GO:0009742 brassinosteroid mediated signaling pathway Biological Process
GO:0010119 regulation of stomatal movement Biological Process
GO:0010305 leaf vascular tissue pattern formation Biological Process
GO:0010828 positive regulation of D-glucose transmembrane transport Biological Process
GO:0016567 protein ubiquitination Biological Process
KEGG gene cross-reference
ath:AT1G14000
ath:AT3G61350
ath:AT4G18950
ath:AT4G20960
zma:100191772
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.

Nucleus0.311
Rank 1 · LXL04_010703 · OH-1004
Cytoplasm0.305
Rank 2 · LXL04_010703 · OH-1004
Plastid0.281
Rank 3 · LXL04_010703 · OH-1004
Cell membrane0.107
Rank 4 · LXL04_010703 · OH-1004
Mitochondrion0.070
Rank 5 · LXL04_010703 · 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.

PF24681.2Kelch_KLHDC2_KLHL20_DRC7134-295 aa
PF25210.2Kelch_FKB95140-362 aa
PF24981.2Beta-prop_ATRN-LZTR1142-301 aa
PF13964.13Beta-prop_Calicin144-318 aa
PF01344.32Kelch_1159-203 aa
PF13415.13Beta-prop_FBX42169-295 aa
PF01344.32Kelch_1206-246 aa
PF12796.14Ank_2455-541 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_010703PF24681.2Kelch_KLHDC2_KLHL20_DRC71342956.6e-1142.6
LXL04_010703PF25210.2Kelch_FKB951403621.3e-2281.4
LXL04_010703PF24981.2Beta-prop_ATRN-LZTR11423018.4e-0626.0
LXL04_010703PF13964.13Beta-prop_Calicin1443189.7e-1038.6
LXL04_010703PF01344.32Kelch_11592035.7e-1658.4
LXL04_010703PF13415.13Beta-prop_FBX421692953.2e-0627.6
LXL04_010703PF01344.32Kelch_12062465.7e-1658.4
LXL04_010703PF12796.14Ank_24555417.4e-1349.6
LXL04_010703PF13857.13Ank_54705191.1e-0629.6
LXL04_010703PF00023.37Ank4825136.2e-1348.9
LXL04_010703PF13637.13Ank_44865342.9e-0731.3
LXL04_010703PF00069.32Pkinase5648154.3e-52177.8
LXL04_010703PF07714.24PK_Tyr_Ser-Thr5658182.7e-56191.4
LXL04_010703PF00383.30dCMP_cyt_deam_18759725.7e-2071.8
LXL04_010703PF14437.13MafB19-deam8789762.1e-0834.8

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
Q8GWP5Arabidopsis thalianaRiboflavin biosynthesis protein PYRD, chloroplastic54.098%Swiss-Protweak database homology
Q9M2C9Arabidopsis thalianaF-box/kelch-repeat protein SKIP448.023%Swiss-Protweak database homology
Q93Z30Arabidopsis thalianaSerine/threonine-protein kinase 1243.117%Swiss-Protweak database homology
Q9XI87Arabidopsis thalianaSerine/threonine-protein kinase VIK41.232%Swiss-Protweak database homology

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