LXL04_005786 | RubberDandelionOmics

Gene overview

LXL04_005786

Reference: OH-1004 Chr: Chr01 Coordinates: 173415097-173418315 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2289 bp · LXL04_005786|LXL04_005786|OH1004|cDNA

TTTTATCCGTCTCTATTGCCCGCTAGGGTTTGTACAAGATCTCCCCCCTTTTCCTCTACGATTCGCCAACGGCAACTCCTCCTAAACCCCAAACCTTCTAAATCCATACTCCATCCAAATTGATTCCGAATCTTGAAGCTAACCATGGCATCTCGAGAAGGAGATCCTTCTTTAGGTTATCTAACTCGGAAGGAAACCGAGGTCAAGCTTCCTCGACCAACTAGGGTTAAGAACAAAACCCCAGCTCCAATTCAAATCAC...

CDS

Download CDS FASTA

2157 bp · LXL04_005786|LXL04_005786|OH1004|CDS

TTGAAGCTAACCATGGCATCTCGAGAAGGAGATCCTTCTTTAGGTTATCTAACTCGGAAGGAAACCGAGGTCAAGCTTCCTCGACCAACTAGGGTTAAGAACAAAACCCCAGCTCCAATTCAAATCACAGCAGAACAGATTCTACGTGAAGCACGAGAACGTCAGGAAGCCGAAATCCGACCACCGAAGCAGAAAATCACCGACTCTTCAGAGCTCGCAGACTATCGTCTCCGCAAACGCAAAGAATTCGAAGACCTAAT...

Protein

Download Protein FASTA

718 aa · LXL04_005786|LXL04_005786|OH1004|PROTEIN

MKLTMASREGDPSLGYLTRKETEVKLPRPTRVKNKTPAPIQITAEQILREARERQEAEIRPPKQKITDSSELADYRLRKRKEFEDLIRRVRWNKSVWVKYAKWEESQKDFNRARSVWERALDVDYRDHTMWLKYADVEMKNKFINHARNVWDRAVTLLPRVDQLWYKYIHMEEMLGNVAGARQIFERWMGWEPDQQAWLSYIKFELRYNEIERARSIYERFVKCIPKVTAWIRFAKFEMKNGEITRSRNCYERAVDKLAD...

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_005786`
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_005786`
Location	Chr01:173415097-173418315 (+)
Description	Similar to CRNKL1: Crooked neck-like protein 1
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_005786` · GCA_047496595.1_OSU_TarKok_2.0.
GO annotations (OH1004 source)	GO:0000245 spliceosomal complex assembly Biological Process GO:0000381 regulation of alternative mRNA splicing, via spliceosome Biological Process GO:0000398 mRNA splicing, via spliceosome Biological Process GO:1990416 cellular response to brain-derived neurotrophic factor stimulus Biological Process GO:1990830 cellular response to leukemia inhibitory factor Biological Process GO:0000974 Prp19 complex Cellular Component GO:0005634 nucleus Cellular Component GO:0005654 nucleoplasm Cellular Component GO:0005681 spliceosomal complex Cellular Component GO:0005829 cytosol Cellular Component GO:0016607 nuclear speck Cellular Component GO:0071006 U2-type catalytic step 1 spliceosome Cellular Component
KEGG gene cross-reference	dme:Dmel_CG3193 dre:393920 hsa:51340 mmu:66877 rno:100910202 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.

Nucleus0.927

Rank 1 · LXL04_005786 · OH-1004

Cytoplasm0.142

Rank 2 · LXL04_005786 · OH-1004

Cell membrane0.022

Rank 3 · LXL04_005786 · OH-1004

Mitochondrion0.015

Rank 4 · LXL04_005786 · OH-1004

Golgi apparatus0.011

Rank 5 · LXL04_005786 · 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.

PF23241.2HAT_PRP39_C79-188 aa

PF23240.2HAT_PRP39_N80-190 aa

PF23233.2HAT_Syf1_CNRKL1_N82-226 aa

PF05843.21Suf89-322 aa

PF23231.2HAT_Syf1_CNRKL1_C94-156 aa

PF13428.13TPR_1496-136 aa

PF23231.2HAT_Syf1_CNRKL1_C129-243 aa

PF29376.1PRP6_TPR131-297 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005786	`PF23241.2`	HAT_PRP39_C	79	188	3.8e-46	157.3
LXL04_005786	`PF23240.2`	HAT_PRP39_N	80	190	6.2e-41	141.0
LXL04_005786	`PF23233.2`	HAT_Syf1_CNRKL1_N	82	226	5.4e-43	147.3
LXL04_005786	`PF05843.21`	Suf	89	322	2.2e-23	83.3
LXL04_005786	`PF23231.2`	HAT_Syf1_CNRKL1_C	94	156	2.9e-40	138.9
LXL04_005786	`PF13428.13`	TPR_14	96	136	3.5e-31	105.2
LXL04_005786	`PF23231.2`	HAT_Syf1_CNRKL1_C	129	243	2.9e-40	138.9
LXL04_005786	`PF29376.1`	PRP6_TPR	131	297	4.6e-38	131.8
LXL04_005786	`PF23231.2`	HAT_Syf1_CNRKL1_C	159	325	2.9e-40	138.9
LXL04_005786	`PF23240.2`	HAT_PRP39_N	178	307	6.2e-41	141.0
LXL04_005786	`PF23241.2`	HAT_PRP39_C	195	297	3.8e-46	157.3
LXL04_005786	`PF29376.1`	PRP6_TPR	205	489	4.6e-38	131.8
LXL04_005786	`PF02184.23`	HAT	210	238	1.4e-27	96.1
LXL04_005786	`PF23240.2`	HAT_PRP39_N	327	454	6.2e-41	141.0
LXL04_005786	`PF29376.1`	PRP6_TPR	329	574	4.6e-38	131.8
LXL04_005786	`PF23233.2`	HAT_Syf1_CNRKL1_N	330	490	5.4e-43	147.3

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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