LXL04_008660 | RubberDandelionOmics

Gene overview

LXL04_008660

Reference: OH-1004 Chr: Chr02 Coordinates: 105432788-105433838 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

636 bp · LXL04_008660|LXL04_008660|OH1004|cDNA

ATGGACGGTGCAAGTGGGGGTGCTGAAGGAGAGATTAGTTATGTCATTCCCAGATTGATCTCCGGTGCTGTCTCTGGTGCACTTACCGGCCTCTTTGCATTCGGTGGGGCGTTCACGGGTGCCATCACCGGTGCCTTAGCAGGTAGAGCTTCTGATTGTGGGGCCCTCCGTGGAGCTGGACTCGGAGCTCTTGCCGGAGCTGTTCTATCTGTCGAGGTTTTGGAGGCTTCACGTGCTTATTGGAGTCAAGAACTCTCTGG...

CDS

Download CDS FASTA

636 bp · LXL04_008660|LXL04_008660|OH1004|CDS

ATGGACGGTGCAAGTGGGGGTGCTGAAGGAGAGATTAGTTATGTCATTCCCAGATTGATCTCCGGTGCTGTCTCTGGTGCACTTACCGGCCTCTTTGCATTCGGTGGGGCGTTCACGGGTGCCATCACCGGTGCCTTAGCAGGTAGAGCTTCTGATTGTGGGGCCCTCCGTGGAGCTGGACTCGGAGCTCTTGCCGGAGCTGTTCTATCTGTCGAGGTTTTGGAGGCTTCACGTGCTTATTGGAGTCAAGAACTCTCTGG...

Protein

Download Protein FASTA

211 aa · LXL04_008660|LXL04_008660|OH1004|PROTEIN

MDGASGGAEGEISYVIPRLISGAVSGALTGLFAFGGAFTGAITGALAGRASDCGALRGAGLGALAGAVLSVEVLEASRAYWSQELSGSRNSSMADFMEELLRGRFSEEQFPPELLTAYHLQVNVRSVEVLDLNDDVAYKGLSDDSLRRLPWHKISDESKLTQSTCCTICLQDIKVGEIARSLPQCLHMFHRTCVDKWLTRHGSCPICRQHV

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_008660`
TK1151 ID	TkA03G348340
OH-1004 ID	LXL04_008660
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	99.500
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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_008660

Location Chr02:105432788-105433838 (-)

Description Similar to ATL24: NEP1-interacting protein-like 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g74410`	May be involved in the early steps of the plant defense signaling pathway.	No verified direct reference in this release
`At5g66070`	May be involved in the early steps of the plant defense signaling pathway.	No verified direct reference in this release
`At2g17730`	Intrinsic thylakoid membrane protein that fixes RPOT2 on the stromal side of the thylakoid membrane.	No verified direct reference in this release
`At4g35840`	Intrinsic thylakoid membrane protein that fixes RPOT2 on the stromal side of the thylakoid membrane.	No verified direct reference in this release
`At5g05280`	RING-H2 finger protein ATL73.	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_008660 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006952 defense response Biological Process

GO:0009416 response to light stimulus Biological Process

GO:0009555 pollen development Biological Process

GO:0009788 negative regulation of abscisic acid-activated signaling pathway Biological Process

GO:0009901 anther dehiscence Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0048443 stamen development Biological Process

GO:0080141 regulation of jasmonic acid biosynthetic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009535 chloroplast thylakoid membrane Cellular Component

KEGG gene cross-reference

ath:AT1G74410

ath:AT2G17730

ath:AT4G35840

ath:AT5G05280

ath:AT5G66070

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.

Cytoplasm0.345

Rank 1 · LXL04_008660 · OH-1004

Nucleus0.242

Rank 2 · LXL04_008660 · OH-1004

Mitochondrion0.231

Rank 3 · LXL04_008660 · OH-1004

Endoplasmic reticulum0.228

Rank 4 · LXL04_008660 · OH-1004

Golgi apparatus0.140

Rank 5 · LXL04_008660 · 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.

PF12678.14zf-rbx1164-208 aa

PF13639.13zf-RING_2165-208 aa

PF17123.12zf-RING_11166-194 aa

PF13923.13zf-C3HC4_2166-207 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_008660	`PF12678.14`	zf-rbx1	164	208	1.5e-06	29.0
LXL04_008660	`PF13639.13`	zf-RING_2	165	208	7.9e-13	49.2
LXL04_008660	`PF17123.12`	zf-RING_11	166	194	9.6e-08	32.3
LXL04_008660	`PF13923.13`	zf-C3HC4_2	166	207	9.7e-07	29.2

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
`Q8LBA0`	Arabidopsis thaliana	NEP1-interacting protein-like 2	61.500%	Swiss-Prot	strong database homology
`Q9FKX5`	Arabidopsis thaliana	NEP1-interacting protein-like 1	41.584%	Swiss-Prot	moderate database homology
`Q8GT74`	Arabidopsis thaliana	NEP1-interacting protein 2	39.130%	Swiss-Prot	moderate database homology
`Q8GT75`	Arabidopsis thaliana	NEP1-interacting protein 1	38.537%	Swiss-Prot	moderate database homology
`Q9FLC6`	Arabidopsis thaliana	RING-H2 finger protein ATL73	46.250%	Swiss-Prot	weak database homology

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