LXL04_004952 | RubberDandelionOmics

Gene overview

LXL04_004952

Reference: OH-1004 Chr: Chr01 Coordinates: 150782417-150786075 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1572 bp · LXL04_004952|LXL04_004952|OH1004|cDNA

ATGATTTCTGCTGATTGTCACGATTACGGTTTCTATGTACTTCACGATGGATTTGGGAATGCTGCTGTACAACGGAGAAGACATCATGCTGTTTCAGTGGCGAAAGAAAGAAGAGAAGCGATGTTCAGAACCAAGCGATTGTGTACGGAAGGATTTAGCAACGACATGGATGTTCATGTCGCCATCAATGGCGACATGATGATTGAAGAGGAGCCATCAGTTCTAGAAGCTCAAACGTCTTCTGCTGTCGAAGAACTCAA...

CDS

Download CDS FASTA

1572 bp · LXL04_004952|LXL04_004952|OH1004|CDS

ATGATTTCTGCTGATTGTCACGATTACGGTTTCTATGTACTTCACGATGGATTTGGGAATGCTGCTGTACAACGGAGAAGACATCATGCTGTTTCAGTGGCGAAAGAAAGAAGAGAAGCGATGTTCAGAACCAAGCGATTGTGTACGGAAGGATTTAGCAACGACATGGATGTTCATGTCGCCATCAATGGCGACATGATGATTGAAGAGGAGCCATCAGTTCTAGAAGCTCAAACGTCTTCTGCTGTCGAAGAACTCAA...

Protein

Download Protein FASTA

523 aa · LXL04_004952|LXL04_004952|OH1004|PROTEIN

MISADCHDYGFYVLHDGFGNAAVQRRRHHAVSVAKERREAMFRTKRLCTEGFSNDMDVHVAINGDMMIEEEPSVLEAQTSSAVEELKLAIASKGIDTVQKKVNALRELRRLLSRSDFPFVEIALKSGAIPLLSQCLSFGSQDEQLLEAAWCLTNIAAGKPEETKSLVPTLPLLIAHLGDKSSLSVGEQCAWALGNVGGESEELRDLLLSQGALIPLARMMLQDKGTTVITASWALSNLIKGPHSEAATELIKIDGVVDAI...

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_004952`
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_004952

Location Chr01:150782417-150786075 (-)

Description Similar to IMPA9: Importin subunit alpha-9

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

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
`At4g16143`	Binds to conventional NLS motifs and mediates nuclear protein import across the nuclear envelope.	SWO1 modulates cell wall integrity under salt stress by interacting with importin ɑ in Arabidopsis.2021 · DOI: 10.1007/s44154-021-00010-5

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
`Os01g0253300`	Functions in nuclear protein import.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_004952 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006606 protein import into nucleus Biological Process

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

GO:0006612 protein targeting to membrane Biological Process

GO:0009651 response to salt stress Biological Process

GO:0031144 proteasome localization Biological Process

GO:0051170 import into nucleus Biological Process

GO:0071555 cell wall organization Biological Process

GO:2000280 regulation of root development Biological Process

GO:0005634 nucleus Cellular Component

GO:0005635 nuclear envelope Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0005737 cytoplasm Cellular Component

KEGG gene cross-reference

ath:AT4G16143

ath:AT5G03070

dosa:Os01g0158000

sce:YNL189W

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.

Cytoplasm0.530

Rank 1 · LXL04_004952 · OH-1004

Nucleus0.497

Rank 2 · LXL04_004952 · OH-1004

Cell membrane0.060

Rank 3 · LXL04_004952 · OH-1004

Golgi apparatus0.051

Rank 4 · LXL04_004952 · OH-1004

Endoplasmic reticulum0.048

Rank 5 · LXL04_004952 · 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.

PF30746.1TMCO699-503 aa

PF00514.30Arm123-157 aa

PF13513.13HEAT_EZ146-196 aa

PF16186.12Arm_3481-522 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_004952	`PF30746.1`	TMCO6	99	503	2.5e-18	66.7
LXL04_004952	`PF00514.30`	Arm	123	157	4.2e-28	97.1
LXL04_004952	`PF13513.13`	HEAT_EZ	146	196	2.5e-09	38.1
LXL04_004952	`PF16186.12`	Arm_3	481	522	3.2e-06	27.4

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`F4KF65`	Arabidopsis thaliana	Importin subunit alpha-9	64.047%	Swiss-Prot	strong database homology
`F4JL11`	Arabidopsis thaliana	Importin subunit alpha-2	30.097%	Swiss-Prot	moderate database homology
`Q9FYP9`	Oryza sativa subsp. japonica	Importin subunit alpha-2	56.660%	Swiss-Prot	strong database homology
`Q71VM4`	Oryza sativa subsp. japonica	Importin subunit alpha-1a	29.842%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card