RubberDandelionOmics Rubber Dandelion Multi-omics Website
More
Transcriptome Expression Annotation Rubber Pathway TF Prediction Targets Protein Network Resequencing Tools Downloads
ZH EN

How to use this page

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_031625
Reference: OH-1004 Chr: Chr07 Coordinates: 8651409-8652725 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1317 bp · LXL04_031625|LXL04_031625|OH1004|cDNA

ATGTCGTCATTGCGGAATATACCTTCTTTACCTAAAAAAATCATGAACAAAGCCGTGCGTAATTCCGATCCTAACCTCTCCGCTAATTTACCGGCAAGCGACGACGACTATAGCAACCGTTCCAGCAACTCCGCCGCCTATGAACCCAACCGTATGAGCTGTGAGGCTTCACCCATTATGATGTCTCCATGGAACCAGACATCTTCTGTCCAGCAATCTCCGTGGTTGAGTAGCGGCGTTGACAGCTCCGGCCATCAAAA...

CDS

Download CDS FASTA

1317 bp · LXL04_031625|LXL04_031625|OH1004|CDS

ATGTCGTCATTGCGGAATATACCTTCTTTACCTAAAAAAATCATGAACAAAGCCGTGCGTAATTCCGATCCTAACCTCTCCGCTAATTTACCGGCAAGCGACGACGACTATAGCAACCGTTCCAGCAACTCCGCCGCCTATGAACCCAACCGTATGAGCTGTGAGGCTTCACCCATTATGATGTCTCCATGGAACCAGACATCTTCTGTCCAGCAATCTCCGTGGTTGAGTAGCGGCGTTGACAGCTCCGGCCATCAAAA...

Protein

Download Protein FASTA

438 aa · LXL04_031625|LXL04_031625|OH1004|PROTEIN

MSSLRNIPSLPKKIMNKAVRNSDPNLSANLPASDDDYSNRSSNSAAYEPNRMSCEASPIMMSPWNQTSSVQQSPWLSSGVDSSGHQKNDFVGSLVREEGHIYSLAATGNLLYTGSDSKNIRVWRNMKEFTAFKSHSGLVKAIILSGDKIFTGHQDGRVRVWKKNRKDPRNHKRVGTFPTFFDVLKTSVRPKNYVEVKRKCTTLWIKHCDAISCLSIDEDEGLLYSASWDRTFKVWQTSNSKCLESVKAHDDAVNSVIGTK...

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.

Download Gene (CDS) Download Protein

ID Mapping

Input IDLXL04_031625
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_031625
LocationChr07:8651409-8652725 (+)
DescriptionSimilar to JGB: Protein JINGUBANG
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g26490 Negative regulator of pollen germination. No verified direct reference in this release
At3g49660 Forms multiple COMPASS-like complexes involved in histone methylation by interacting with different histone H3 'Lys-4' methyltransferases such as ATX1, SDG14 or SDG16.
Establishment of the winter-annual growth habit via FRIGIDA-mediated histone methylation at FLOWERING LOCUS C in Arabidopsis.2009 · DOI: 10.1105/tpc.109.067967
At4g02730 COMPASS-like H3K4 histone methylase component WDR5B. 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_031625 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0000281 mitotic cytokinesis Biological Process
GO:0009846 pollen germination Biological Process
GO:0010228 vegetative to reproductive phase transition of meristem Biological Process
GO:0031037 myosin II filament disassembly Biological Process
GO:0032259 methylation Biological Process
GO:1903013 response to differentiation-inducing factor 1 Biological Process
GO:0005634 nucleus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005826 actomyosin contractile ring Cellular Component
GO:0048188 Set1C/COMPASS complex Cellular Component
GO:0004674 protein serine/threonine kinase activity Molecular Function
GO:0005524 ATP binding Molecular Function
KEGG gene cross-reference
ath:AT2G26490
ath:AT3G49660
ddi:DDB_G0289115
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.

Cytoplasm0.432
Rank 1 · LXL04_031625 · OH-1004
Nucleus0.375
Rank 2 · LXL04_031625 · OH-1004
Cell membrane0.187
Rank 3 · LXL04_031625 · OH-1004
Lysosome / Vacuole0.069
Rank 4 · LXL04_031625 · OH-1004
Golgi apparatus0.063
Rank 5 · LXL04_031625 · 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.

PF24017.3Beta-prop_SCAP35-324 aa
PF24817.2WD40_WDHD1_1st84-181 aa
PF25171.2Beta-prop_WDR36-Utp21_1st98-171 aa
PF25174.2Beta-prop_THOC3105-168 aa
PF25175.2Beta-prop_WDR5106-164 aa
PF24817.2WD40_WDHD1_1st145-287 aa
PF24796.2WDR55192-288 aa
PF25175.2Beta-prop_WDR5197-329 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_031625PF24017.3Beta-prop_SCAP353246.8e-1555.6
LXL04_031625PF24817.2WD40_WDHD1_1st841811.4e-2590.8
LXL04_031625PF25171.2Beta-prop_WDR36-Utp21_1st981711.6e-1248.1
LXL04_031625PF25174.2Beta-prop_THOC31051687.1e-35121.0
LXL04_031625PF25175.2Beta-prop_WDR51061645.4e-36125.1
LXL04_031625PF24817.2WD40_WDHD1_1st1452871.4e-2590.8
LXL04_031625PF24796.2WDR551922886.1e-2175.5
LXL04_031625PF25175.2Beta-prop_WDR51973295.4e-36125.1
LXL04_031625PF25173.2Beta-prop_WDR3_1st1982774.6e-35121.7
LXL04_031625PF00400.39WD401992352.9e-43145.1
LXL04_031625PF24807.2WD40_CDC20-Fz1992902.9e-2486.6
LXL04_031625PF25391.2WD40_Gbeta2013655.1e-1762.6
LXL04_031625PF25047.1Beta-prop_TEP1_2nd2022911.6e-2280.6
LXL04_031625PF25174.2Beta-prop_THOC32043897.1e-35121.0
LXL04_031625PF24805.2EIF3I2082931.3e-1764.7
LXL04_031625PF23409.2Beta-prop_EML2093938.4e-1555.7

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
O48716Arabidopsis thalianaProtein JINGUBANG64.634%Swiss-Protstrong database homology
Q9M2Z2Arabidopsis thalianaCOMPASS-like H3K4 histone methylase component WDR5A30.000%Swiss-Protweak database homology
Q9SY00Arabidopsis thalianaCOMPASS-like H3K4 histone methylase component WDR5B25.148%Swiss-Protweak database homology

JBrowse

View in Genome Browser