LXL04_035022 | RubberDandelionOmics

Gene overview

LXL04_035022

Reference: OH-1004 Chr: Chr08 Coordinates: 11464597-11466679 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1824 bp · LXL04_035022|LXL04_035022|OH1004|cDNA

ATGGTTCTATCAAATAAGAAGCTAAAGGAAAAGCTACGAGTCCAACTCGCCGAAACCTTAGCCAAATCAGAGTCACAAGTAAACCAACCCAATCCCAACGACTCGCAAACCCCCCAGTCATTCAAATCTCTCTTGAATTTGGTAACCCAAAAACCTAAATTATCCAAAAGAGAAAAACGCAGAGTTAAATTACCATCTGTTCAAGGAAGTTCAGAACTTCAAACTCATGAAAATGGTGAAAGCGAAGATGGTAATGGTGG...

CDS

Download CDS FASTA

1824 bp · LXL04_035022|LXL04_035022|OH1004|CDS

ATGGTTCTATCAAATAAGAAGCTAAAGGAAAAGCTACGAGTCCAACTCGCCGAAACCTTAGCCAAATCAGAGTCACAAGTAAACCAACCCAATCCCAACGACTCGCAAACCCCCCAGTCATTCAAATCTCTCTTGAATTTGGTAACCCAAAAACCTAAATTATCCAAAAGAGAAAAACGCAGAGTTAAATTACCATCTGTTCAAGGAAGTTCAGAACTTCAAACTCATGAAAATGGTGAAAGCGAAGATGGTAATGGTGG...

Protein

Download Protein FASTA

607 aa · LXL04_035022|LXL04_035022|OH1004|PROTEIN

MVLSNKKLKEKLRVQLAETLAKSESQVNQPNPNDSQTPQSFKSLLNLVTQKPKLSKREKRRVKLPSVQGSSELQTHENGESEDGNGGLKKNNKRKREKDAVEVKDPNEIKSNKKKNKKKKNKKAAKKEEEEGLQKAIAITEEQPVQQTSKPIETHNSKEDPSISTKVYVGGIPYYSTVDDIRSYFEGCGSITEIDCLKFPETGKFNGIAMISFRTEAASKRALALDGSDMGGLSLKVQPYKATREKKVSDFAPAMLDGYN...

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_035022`
TK1151 ID	TkA04G178100
OH-1004 ID	LXL04_035022
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	97.400
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_035022

Location Chr08:11464597-11466679 (+)

Description Similar to HEXBP: DNA-binding protein HEXBP

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g55340`	RNA-binding protein which mediates polarized mRNA (e.g.	A novel RNA-binding protein associated with cell plate formation.2008 · DOI: 10.1104/pp.108.120527

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0620700`	Involved in pre-rRNA processing and ribosome assembly.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_035022 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000914 phragmoplast assembly Biological Process

GO:0006397 mRNA processing Biological Process

GO:0009451 RNA modification Biological Process

GO:0009920 cell plate formation involved in plant-type cell wall biogenesis Biological Process

GO:0045087 innate immune response Biological Process

GO:1901259 chloroplast rRNA processing Biological Process

GO:0005634 nucleus Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009524 phragmoplast Cellular Component

GO:0009535 chloroplast thylakoid membrane Cellular Component

GO:1990904 ribonucleoprotein complex Cellular Component

GO:0003677 DNA binding Molecular Function

KEGG gene cross-reference

ath:AT3G55340

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.

Nucleus0.769

Rank 1 · LXL04_035022 · OH-1004

Cytoplasm0.229

Rank 2 · LXL04_035022 · OH-1004

Cell membrane0.056

Rank 3 · LXL04_035022 · OH-1004

Endoplasmic reticulum0.055

Rank 4 · LXL04_035022 · OH-1004

Plastid0.027

Rank 5 · LXL04_035022 · 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.

PF00076.29RRM_1167-235 aa

PF00076.29RRM_1262-329 aa

PF00098.29zf-CCHC365-381 aa

PF00098.29zf-CCHC471-488 aa

PF00098.29zf-CCHC524-541 aa

PF00098.29zf-CCHC581-598 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_035022	`PF00076.29`	RRM_1	167	235	2.8e-26	91.9
LXL04_035022	`PF00076.29`	RRM_1	262	329	2.8e-26	91.9
LXL04_035022	`PF00098.29`	zf-CCHC	365	381	2.4e-23	81.8
LXL04_035022	`PF00098.29`	zf-CCHC	471	488	2.4e-23	81.8
LXL04_035022	`PF00098.29`	zf-CCHC	524	541	2.4e-23	81.8
LXL04_035022	`PF00098.29`	zf-CCHC	581	598	2.4e-23	81.8

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

Protein	Organism	Description	Identity	Database	Confidence
`Q9M3B8`	Arabidopsis thaliana	Phragmoplastin interacting protein 1	27.689%	Swiss-Prot	weak database homology
`Q7XTT4`	Oryza sativa subsp. japonica	Nucleolin 2	29.730%	Swiss-Prot	weak database homology

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