LXL04_006550 | RubberDandelionOmics

Gene overview

LXL04_006550

Reference: OH-1004 Chr: Chr02 Coordinates: 13257277-13259659 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1128 bp · LXL04_006550|LXL04_006550|OH1004|cDNA

GAGGCGGAAGTGAAGAATGAGGAAGCTAATGCTGGTGGTGCTTCCAAATATGGGAAAAGAAATGTTAAGGCAGTTGATCCGGATCCACATGGCGAGAAGTTATTGCAGATGGAATCCCAAATTCATTACCTTGAGCAAGTGGCATACAGCTCAGTCCTACGAGCTTTCAAAGCACAATCAGATGCCCTTTCTTGGGAGAAAGAAGGACTGATAACAGAACTCCGAAAAGAGCTGCGAGTCTCTGATGATGAACACAGAGA...

CDS

Download CDS FASTA

879 bp · LXL04_006550|LXL04_006550|OH1004|CDS

TTGCAGATGGAATCCCAAATTCATTACCTTGAGCAAGTGGCATACAGCTCAGTCCTACGAGCTTTCAAAGCACAATCAGATGCCCTTTCTTGGGAGAAAGAAGGACTGATAACAGAACTCCGAAAAGAGCTGCGAGTCTCTGATGATGAACACAGAGAACTACTCTCAGATGACATCATCATAAGGATCAGGGAGGGAAAAGGTGCAGTCCAAAAAAAGGTCAATGCTCTTCGTGAACTAAGACGCTTATTATCAAAATC...

Protein

Download Protein FASTA

292 aa · LXL04_006550|LXL04_006550|OH1004|PROTEIN

MQMESQIHYLEQVAYSSVLRAFKAQSDALSWEKEGLITELRKELRVSDDEHRELLSDDIIIRIREGKGAVQKKVNALRELRRLLSKSGAIPLLAQCLSFGSQDEQLLEAAWCLTNIAAGKPEETRALLPALPLLIAYIGEKSSVPVAEQCAWAIGNVAGEGDELRQILISQGTLLPLAKMMLPNKGSTGPDPKAATELIKVDGVVEAILRHLRKSVLVKTDVLQLLVERLMLIPQLEALVGRHSRPLTFWIGSQQKKQCF...

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_006550`
TK1151 ID	TkA04G376720
OH-1004 ID	LXL04_006550
Relationship / confidence	Multi Candidate From Tk1151 / Complex relationship
Protein identity (%)	98.300
Protein coverage (%)	TK1151 69.856 / 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_006550

Location Chr02:13257277-13259659 (+)

Description No functional description available

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g03070`	Binds to conventional NLS motifs and mediates nuclear protein import across the nuclear envelope (By similarity).	No verified direct reference in this release
`At3g12140`	Probably involved in the regulation of chromatin states (Probable).	EMSY-like genes are required for full RPP7-mediated race-specific immunity and basal defense in Arabidopsis.2011 · DOI: 10.1094/mpmi-05-11-0123
`At5g13020`	Probably involved in the regulation of chromatin states (Probable).	No verified direct reference in this release
`At2g44440`	Probably involved in the regulation of chromatin states (Probable).	EMSY-like genes are required for full RPP7-mediated race-specific immunity and basal defense in Arabidopsis.2011 · DOI: 10.1094/mpmi-05-11-0123

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0158000`	Binds specifically and directly to substrates containing either a simple or bipartite NLS motif.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_006550 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006357 regulation of transcription by RNA polymerase II Biological Process

GO:0006607 NLS-bearing protein import into nucleus Biological Process

GO:0010228 vegetative to reproductive phase transition of meristem Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0005634 nucleus Cellular Component

GO:0005635 nuclear envelope Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0042564 NLS-dependent protein nuclear import complex Cellular Component

GO:0048471 perinuclear region of cytoplasm Cellular Component

GO:0003682 chromatin binding Molecular Function

GO:0008139 nuclear localization sequence binding Molecular Function

GO:0031491 nucleosome binding Molecular Function

KEGG gene cross-reference

ath:AT2G44440

ath:AT3G12140

ath:AT5G03070

ath:AT5G13020

dosa:Os01g0158000

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.

Cytoplasm0.446

Rank 1 · LXL04_006550 · OH-1004

Nucleus0.357

Rank 2 · LXL04_006550 · OH-1004

Cell membrane0.100

Rank 3 · LXL04_006550 · OH-1004

Mitochondrion0.097

Rank 4 · LXL04_006550 · OH-1004

Endoplasmic reticulum0.091

Rank 5 · LXL04_006550 · 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.

PF03735.21ENT1-67 aa

PF00514.30Arm79-118 aa

PF30746.1TMCO6100-179 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_006550	`PF03735.21`	ENT	1	67	1e-23	83.8
LXL04_006550	`PF00514.30`	Arm	79	118	2.8e-10	40.6
LXL04_006550	`PF30746.1`	TMCO6	100	179	2.9e-06	27.0

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
`F4KF65`	Arabidopsis thaliana	Importin subunit alpha-9	57.391%	Swiss-Prot	moderate database homology
`Q9C7C4`	Arabidopsis thaliana	Protein EMSY-LIKE 1	74.667%	Swiss-Prot	weak database homology
`F4K2F0`	Arabidopsis thaliana	Protein EMSY-LIKE 3	66.667%	Swiss-Prot	weak database homology
`Q08A72`	Arabidopsis thaliana	Protein EMSY-LIKE 4	70.149%	Swiss-Prot	weak database homology
`Q9FYP9`	Oryza sativa subsp. japonica	Importin subunit alpha-2	53.043%	Swiss-Prot	moderate database homology

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