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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_013079
Reference: OH-1004 Chr: Chr03 Coordinates: 23602711-23606578 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2605 bp · LXL04_013079|LXL04_013079|OH1004|cDNA

GGAGAAGGAAACCCAATTTCACACGGTAAGTGGGTAGGCGTAGGTCCCTTCTCCATAAATTGTTACCCAAGACACTCGCATTCTTCATCTTCTCGTCGTTCTCCATCACAACTTCCGGTTTACTCTCCAAATCGGAGTATACAATCCACCGTCGTTCGCCATGAGCAACCAACCGGAATCTTCTTCTTCCGAGCCGAAAGGTAACCCTCCGGCGAAAAAGGACTTTTCAACTGCTATCTTGGAGCGCAAGAAGTCTCCAA...

CDS

Download CDS FASTA

2445 bp · LXL04_013079|LXL04_013079|OH1004|CDS

ATGAGCAACCAACCGGAATCTTCTTCTTCCGAGCCGAAAGGTAACCCTCCGGCGAAAAAGGACTTTTCAACTGCTATCTTGGAGCGCAAGAAGTCTCCAAATCGGCTTGTTGTTGATGAAGCTGTCAATGACGATAACTCCGTCGTCGCTATGCACCCTACCACGATGGAAAAATTGCAGCTTTTCCGTGGTGATACCATACTGATCAAGGGGAAGAAAAGAAAAGACACAGTCTGTATAGCTCTTGCTGATGAAACATG...

Protein

Download Protein FASTA

814 aa · LXL04_013079|LXL04_013079|OH1004|PROTEIN

MSNQPESSSSEPKGNPPAKKDFSTAILERKKSPNRLVVDEAVNDDNSVVAMHPTTMEKLQLFRGDTILIKGKKRKDTVCIALADETCDEPKIRMNKVIRTNLRIRLGDVVSVHQCPDVKYGKRIHVLPLDDTIEGVTGDLFDAYLKPYFLEAYRPVRKGDHFLVRGGMRSVEFKVIETDPGEYCVVAPDTEIFCEGEPIKRDDEDRLDEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGK...

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_013079
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_013079
LocationChr03:23602711-23606578 (-)
DescriptionSimilar to CAFP: Cell division cycle protein 48 homolog
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g03340 Probably functions in cell division and growth processes. No verified direct reference in this release
At3g53230 Probably functions in cell division and growth processes. No verified direct reference in this release
At3g09840 Probably functions in cell division and growth processes (Probable).
Ubiquitin-dependent chloroplast-associated protein degradation in plants.2019 · DOI: 10.1126/science.aav4467
The CDC48 complex mediates ubiquitin-dependent degradation of intra-chloroplast proteins in plants.2022 · DOI: 10.1016/j.celrep.2022.110664

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_013079 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006511 ubiquitin-dependent protein catabolic process Biological Process
GO:0009846 pollen germination Biological Process
GO:0009860 pollen tube growth Biological Process
GO:0010498 proteasomal protein catabolic process Biological Process
GO:0030162 regulation of proteolysis Biological Process
GO:0030970 retrograde protein transport, ER to cytosol Biological Process
GO:0031348 negative regulation of defense response Biological Process
GO:0031648 protein destabilization Biological Process
GO:0034614 cellular response to reactive oxygen species Biological Process
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process Biological Process
GO:0045732 positive regulation of protein catabolic process Biological Process
GO:0051228 mitotic spindle disassembly Biological Process
KEGG gene cross-reference
ath:AT3G09840
ath:AT3G53230
ath:AT5G03340
cann:107847567
gmx:547850
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.

Cytoplasm0.611
Rank 1 · LXL04_013079 · OH-1004
Nucleus0.380
Rank 2 · LXL04_013079 · OH-1004
Cell membrane0.093
Rank 3 · LXL04_013079 · OH-1004
Endoplasmic reticulum0.075
Rank 4 · LXL04_013079 · OH-1004
Lysosome / Vacuole0.051
Rank 5 · LXL04_013079 · 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.

PF02359.25CDC48_N35-116 aa
PF02933.24CDC48_2136-200 aa
PF13191.13AAA_16247-349 aa
PF05496.19RuvB_N249-323 aa
PF13173.13AAA_14249-354 aa
PF00004.36AAA250-379 aa
PF13671.13AAA_33250-322 aa
PF07724.21AAA_2250-343 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_013079PF02359.25CDC48_N351161.6e-2383.4
LXL04_013079PF02933.24CDC48_21362003.1e-1143.4
LXL04_013079PF13191.13AAA_162473493e-1144.8
LXL04_013079PF05496.19RuvB_N2493236.2e-1452.8
LXL04_013079PF13173.13AAA_142493541.5e-0938.7
LXL04_013079PF00004.36AAA2503797.7e-98324.7
LXL04_013079PF13671.13AAA_332503225.2e-1143.7
LXL04_013079PF07724.21AAA_22503431.8e-1041.8
LXL04_013079PF07728.21AAA_52503684.5e-1040.4
LXL04_013079PF17862.8AAA_lid_34024438.6e-31105.8
LXL04_013079PF05496.19RuvB_N5215566.2e-1452.8
LXL04_013079PF13191.13AAA_165216293e-1144.8
LXL04_013079PF00004.36AAA5236567.7e-98324.7
LXL04_013079PF17862.8AAA_lid_36787178.6e-31105.8

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
Q9LZF6Arabidopsis thalianaCell division control protein 48 homolog E91.191%Swiss-Protstrong database homology
Q9SCN8Arabidopsis thalianaCell division control protein 48 homolog D89.538%Swiss-Protstrong database homology
P54609Arabidopsis thalianaCell division control protein 48 homolog A90.411%Swiss-Protstrong database homology

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