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Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

LXL04_015867
Reference: OH-1004 Chr: Chr03 Coordinates: 93453094-93459948 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

5304 bp · LXL04_015867|LXL04_015867|OH1004|cDNA

ATGCCCAGTGATCAATTCGCTACTGGGTACCGGAACAGAGCCTCTCATATGCCGAACAACTATCAGTACCACCACCACCGGAGGCGAGATCGAGACTTTCCGCCGCCGTCCTCAACCACCCACCGCCGTCCCAATTTTGTAATAGAACTATGTTCTCAGTACAGCGATCACAACAGCTACAATCGTCATGAAATCGTAACTCTTATGGGGAAATTCACGTGCGACCCTGACGATTTTTTTATTTACGAAAAGGGTGTAGT...

CDS

Download CDS FASTA

5304 bp · LXL04_015867|LXL04_015867|OH1004|CDS

ATGCCCAGTGATCAATTCGCTACTGGGTACCGGAACAGAGCCTCTCATATGCCGAACAACTATCAGTACCACCACCACCGGAGGCGAGATCGAGACTTTCCGCCGCCGTCCTCAACCACCCACCGCCGTCCCAATTTTGTAATAGAACTATGTTCTCAGTACAGCGATCACAACAGCTACAATCGTCATGAAATCGTAACTCTTATGGGGAAATTCACGTGCGACCCTGACGATTTTTTTATTTACGAAAAGGGTGTAGT...

Protein

Download Protein FASTA

1767 aa · LXL04_015867|LXL04_015867|OH1004|PROTEIN

MPSDQFATGYRNRASHMPNNYQYHHHRRRDRDFPPPSSTTHRRPNFVIELCSQYSDHNSYNRHEIVTLMGKFTCDPDDFFIYEKGVVAGRFFYQQWPNALETIVYLWEALLDGGLSFMPRLRQNLIVPSDTEELNSRLRVLFSQRIKGFKEGGLVKKWEKRLEQVSNEIAKIDVLLRKPRKYAEHMELSKKKQGFAREKLLIGKRIGEFKSGMECILDYVNGKVFDSSDVKVLKLKGNIVWSKIHWLIKRECRRLDDGLP...

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.

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ID Mapping

Input IDLXL04_015867
Source versionOH-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 IDLXL04_015867
LocationChr03:93453094-93459948 (-)
DescriptionSimilar to At5g10370: ATP-dependent RNA helicase DEAH12, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g10370 ATP-dependent RNA helicase DEAH12, chloroplastic. No verified direct reference in this release
At4g01020 ATP-dependent RNA helicase DEAH11, chloroplastic. No verified direct reference in this release
At3g26560 May be involved in pre-mRNA splicing. 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_015867 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0000398 mRNA splicing, via spliceosome Biological Process
GO:0006605 protein targeting Biological Process
GO:0007281 germ cell development Biological Process
GO:0010172 embryonic body morphogenesis Biological Process
GO:0048589 developmental growth Biological Process
GO:0005634 nucleus Cellular Component
GO:0005681 spliceosomal complex Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0005768 endosome Cellular Component
GO:0009506 plasmodesma Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0071013 catalytic step 2 spliceosome Cellular Component
KEGG gene cross-reference
ath:AT3G26560
ath:AT4G01020
ath:AT5G10370
cel:CELE_EEED8.5
ddi:DDB_G0291183
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.

Cytoplasm0.540
Rank 1 · LXL04_015867 · OH-1004
Nucleus0.427
Rank 2 · LXL04_015867 · OH-1004
Mitochondrion0.100
Rank 3 · LXL04_015867 · OH-1004
Cell membrane0.047
Rank 4 · LXL04_015867 · OH-1004
Peroxisome0.044
Rank 5 · LXL04_015867 · 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.

PF00270.36DEAD304-444 aa
PF13401.13AAA_22304-437 aa
PF00271.38Helicase_C500-620 aa
PF21010.3HA2_C714-776 aa
PF07717.23OB_NTP_bind847-926 aa
PF24475.2RBD_DEAH111022-1130 aa
PF24637.2RRM_DEAH111151-1232 aa
PF24638.2KH_DEAH11_1st1329-1393 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_015867PF00270.36DEAD3044441.9e-0834.9
LXL04_015867PF13401.13AAA_223044376.5e-0627.2
LXL04_015867PF00271.38Helicase_C5006202e-1454.5
LXL04_015867PF21010.3HA2_C7147769.6e-0729.9
LXL04_015867PF07717.23OB_NTP_bind8479261.3e-1042.0
LXL04_015867PF24475.2RBD_DEAH11102211302.5e-39134.7
LXL04_015867PF24637.2RRM_DEAH11115112321.7e-2589.8
LXL04_015867PF24638.2KH_DEAH11_1st132913932.6e-2795.5
LXL04_015867PF24641.2KH_DEAH11_2nd139414682.8e-29101.4
LXL04_015867PF24471.2KH_DEAH11147015372.4e-30104.7
LXL04_015867PF01485.28IBR162516866.7e-1349.2
LXL04_015867PF01485.28IBR169817516.7e-1349.2
LXL04_015867PF26200.2Rcat_RNF216171117593.7e-0731.3

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.

Download current result

ProteinOrganismDescriptionIdentityDatabaseConfidence
F4KGU4Arabidopsis thalianaATP-dependent RNA helicase DEAH12, chloroplastic49.633%Swiss-Protmoderate database homology
P0CE10Arabidopsis thalianaATP-dependent RNA helicase DEAH11, chloroplastic49.130%Swiss-Protmoderate database homology
Q38953Arabidopsis thalianaProbable pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH534.708%Swiss-Protweak database homology

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