LXL04_023302 | RubberDandelionOmics

Gene overview

LXL04_023302

Reference: OH-1004 Chr: Chr05 Coordinates: 31472317-31475912 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1566 bp · LXL04_023302|LXL04_023302|OH1004|cDNA

atgagTTCAAAAAATTCTACGTCTCGGTCCAAAGATGCAAATTTGGTTATCGTGGGTGTGAAACAAACCAACCGCACCTACGAAGTTTGGCAACATTTTGATTCATTGGAGATGTCCGACGGGACCGAAAGAGCTCAATTTAAAAAATGCGGTTTGATTATGGGAGCATCGGGAAATTCGCATTTATTAAAGCATGCAACAAGAACTTCTCGGGTAGTAAAAGGTGAACAAGTTGATCCGAATCAACCAAATATGACACC...

CDS

Download CDS FASTA

1566 bp · LXL04_023302|LXL04_023302|OH1004|CDS

ATGAGTTCAAAAAATTCTACGTCTCGGTCCAAAGATGCAAATTTGGTTATCGTGGGTGTGAAACAAACCAACCGCACCTACGAAGTTTGGCAACATTTTGATTCATTGGAGATGTCCGACGGGACCGAAAGAGCTCAATTTAAAAAATGCGGTTTGATTATGGGAGCATCGGGAAATTCGCATTTATTAAAGCATGCAACAAGAACTTCTCGGGTAGTAAAAGGTGAACAAGTTGATCCGAATCAACCAAATATGACACC...

Protein

Download Protein FASTA

521 aa · LXL04_023302|LXL04_023302|OH1004|PROTEIN

MSSKNSTSRSKDANLVIVGVKQTNRTYEVWQHFDSLEMSDGTERAQFKKCGLIMGASGNSHLLKHATRTSRVVKGEQVDPNQPNMTPDGGVFVYDNERVRERFCHFVIQQALLFNHFDNPQFTQIIQENMQPQYRPSKPIETEPKTLNQVELNLNSANCLSRLSVLSRPLYTPILFNRNHKTSLRMQSGEGALSVMGPRPMDLSTNHHTTPTTKQRTSSLLSPIMLLTGHQSAIYTLKFNPTGTIIASGSHDREIFLWNT...

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_023302`
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_023302`
Location	Chr05:31472317-31475912 (-)
Description	Similar to SNRNP40: U5 small nuclear ribonucleoprotein 40 kDa protein
Arabidopsis / Rice Reference Genes and Papers	Download references for this gene Arabidopsis No hit for this species in the current source table. Rice No hit for this species in the current source table.
Functional annotation source	View annotation sources Functional annotation source: OH1004 · `LXL04_023302` · GCA_047496595.1_OSU_TarKok_2.0.
GO annotations (OH1004 source)	GO:0000244 spliceosomal tri-snRNP complex assembly Biological Process GO:0000375 RNA splicing, via transesterification reactions Biological Process GO:0000387 spliceosomal snRNP assembly Biological Process GO:0000388 spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) Biological Process GO:0000398 mRNA splicing, via spliceosome Biological Process GO:0006396 RNA processing Biological Process GO:0006397 mRNA processing Biological Process GO:0008380 RNA splicing Biological Process GO:0005634 nucleus Cellular Component GO:0005654 nucleoplasm Cellular Component GO:0005681 spliceosomal complex Cellular Component GO:0005682 U5 snRNP Cellular Component
KEGG gene cross-reference	bta:534645 hsa:9410 mmu:66585 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.

Nucleus0.840

Rank 1 · LXL04_023302 · OH-1004

Cytoplasm0.210

Rank 2 · LXL04_023302 · OH-1004

Mitochondrion0.034

Rank 3 · LXL04_023302 · OH-1004

Cell membrane0.025

Rank 4 · LXL04_023302 · OH-1004

Endoplasmic reticulum0.011

Rank 5 · LXL04_023302 · 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.

PF24797.2Beta-prop_WDR35_TULP_N203-291 aa

PF25047.1Beta-prop_TEP1_2nd214-322 aa

PF25460.2Beta-prop_Aladin219-338 aa

PF24807.2WD40_CDC20-Fz221-275 aa

PF00400.39WD40223-259 aa

PF25172.2Beta-prop_WDR3_2nd223-262 aa

PF24805.2EIF3I223-430 aa

PF24105.2Beta-prop_CAF1B_HIR1224-349 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_023302	`PF24797.2`	Beta-prop_WDR35_TULP_N	203	291	3.2e-08	33.8
LXL04_023302	`PF25047.1`	Beta-prop_TEP1_2nd	214	322	1.4e-35	123.4
LXL04_023302	`PF25460.2`	Beta-prop_Aladin	219	338	3.7e-19	69.8
LXL04_023302	`PF24807.2`	WD40_CDC20-Fz	221	275	2e-39	136.4
LXL04_023302	`PF00400.39`	WD40	223	259	3e-59	195.7
LXL04_023302	`PF25172.2`	Beta-prop_WDR3_2nd	223	262	1.4e-33	117.2
LXL04_023302	`PF24805.2`	EIF3I	223	430	5e-30	105.5
LXL04_023302	`PF24105.2`	Beta-prop_CAF1B_HIR1	224	349	1.9e-36	126.6
LXL04_023302	`PF25173.2`	Beta-prop_WDR3_1st	225	346	2e-62	210.9
LXL04_023302	`PF24817.2`	WD40_WDHD1_1st	225	313	5.2e-38	131.6
LXL04_023302	`PF23414.2`	Beta-prop_EML_2	225	314	7.4e-36	124.6
LXL04_023302	`PF25175.2`	Beta-prop_WDR5	227	516	4e-65	220.7
LXL04_023302	`PF23381.2`	Beta-prop_IFT122_1st	227	428	1.9e-55	188.9
LXL04_023302	`PF25171.2`	Beta-prop_WDR36-Utp21_1st	228	344	1.9e-19	70.8
LXL04_023302	`PF23869.2`	Beta-prop_WDR75_1st	228	310	2.3e-18	67.3
LXL04_023302	`PF23409.2`	Beta-prop_EML	228	434	1.7e-17	64.5

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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