LXL04_010707 | RubberDandelionOmics

Gene overview

LXL04_010707

Reference: OH-1004 Chr: Chr02 Coordinates: 151911853-151915264 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1260 bp · LXL04_010707|LXL04_010707|OH1004|cDNA

ATGAAGATAAATAAGGCCTGTGATCTCAGCTCAATTTCTGTTCTTCCTCCTCAATCAAGAAAGCGATCAAGTGTCTCATGTAGCCTGCCAGAGATGTCCACAACTTTCAGGCAAAGTCAAGCATCATCACAGCAGCAGCGTTCACAGCAGTCATTCTCTCAGGGACTCTCATCTCAACCTAATGCCATATTCTCTCAGTTCTCACAGAATTCCCAAGATGAAACTTTGACAAATGACCAGTTGGTTGTTTCTCAAGAAAG...

CDS

Download CDS FASTA

1260 bp · LXL04_010707|LXL04_010707|OH1004|CDS

ATGAAGATAAATAAGGCCTGTGATCTCAGCTCAATTTCTGTTCTTCCTCCTCAATCAAGAAAGCGATCAAGTGTCTCATGTAGCCTGCCAGAGATGTCCACAACTTTCAGGCAAAGTCAAGCATCATCACAGCAGCAGCGTTCACAGCAGTCATTCTCTCAGGGACTCTCATCTCAACCTAATGCCATATTCTCTCAGTTCTCACAGAATTCCCAAGATGAAACTTTGACAAATGACCAGTTGGTTGTTTCTCAAGAAAG...

Protein

Download Protein FASTA

419 aa · LXL04_010707|LXL04_010707|OH1004|PROTEIN

MKINKACDLSSISVLPPQSRKRSSVSCSLPEMSTTFRQSQASSQQQRSQQSFSQGLSSQPNAIFSQFSQNSQDETLTNDQLVVSQERENSVKRFSCLPPVNHTREESQMPLSRSSTGLTRKWGSVSEQRGQMSEEFEHRIGTIESSLSRFGLMLESLQTDIMQVNKGTKELTMDMESIRQKLFAHDNSLQTIDNSVQMIVNSLQKINKGQEDVKSNLHGELKSLSEKLNHDKSHENSQEFSVFLSSLEEKIGMFMVKLRN...

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_010707`
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_010707

Location Chr02:151911853-151915264 (-)

Description Similar to PRD3: Putative recombination initiation defects 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g01690`	Involved in DNA cleavage that forms the double-strand breaks (DSB) that initiate meiotic recombination.	A high throughput genetic screen identifies new early meiotic recombination functions in Arabidopsis thaliana.2009 · DOI: 10.1371/journal.pgen.1000654

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0106300`	Involved in spore formation.	The novel gene HOMOLOGOUS PAIRING ABERRATION IN RICE MEIOSIS1 of rice encodes a putative coiled-coil protein required for homologous chromosome pairing in meiosis.2004 · DOI: 10.1105/tpc.020701

Functional annotation source

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Functional annotation source: OH1004 · LXL04_010707 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009553 embryo sac development Biological Process

GO:0009554 megasporogenesis Biological Process

GO:0009555 pollen development Biological Process

GO:0009556 microsporogenesis Biological Process

GO:0042138 meiotic DNA double-strand break formation Biological Process

GO:0051026 chiasma assembly Biological Process

GO:0070192 chromosome organization involved in meiotic cell cycle Biological Process

GO:0005634 nucleus Cellular Component

KEGG gene cross-reference

ath:AT1G01690

dosa:Os03g0106300

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.

Nucleus0.905

Rank 1 · LXL04_010707 · OH-1004

Cytoplasm0.232

Rank 2 · LXL04_010707 · OH-1004

Mitochondrion0.028

Rank 3 · LXL04_010707 · OH-1004

Cell membrane0.020

Rank 4 · LXL04_010707 · OH-1004

Golgi apparatus0.011

Rank 5 · LXL04_010707 · 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.

PF28641.1PRD3_coil134-194 aa

PF28641.1PRD3_coil200-271 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_010707	`PF28641.1`	PRD3_coil	134	194	4.7e-40	137.4
LXL04_010707	`PF28641.1`	PRD3_coil	200	271	4.7e-40	137.4

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
`Q0WWX5`	Arabidopsis thaliana	Putative recombination initiation defects 3	34.526%	Swiss-Prot	moderate database homology
`Q75RY2`	Oryza sativa subsp. japonica	Protein PAIR1	28.721%	Swiss-Prot	weak database homology

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