LXL04_018883 | RubberDandelionOmics

Gene overview

LXL04_018883

Reference: OH-1004 Chr: Chr04 Coordinates: 19601448-19604336 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1296 bp · LXL04_018883|LXL04_018883|OH1004|cDNA

atgacctattatgGTGAGACTAcggtcatcttctccggttatACAAGGGAAAAAAGAAAGAGTGTAAACCCTCGCCGGCACACCGGGAGTTCCATACCGTCCGCCTCCCAATTGCTTGCTTGCCTCGCCATGGACGCGACAGATATGGACGTAGAAGTAAATGAAGAACATAACCGCATTATTCCCGATTCCAATAGCTCGTCGAAGCGATTTGCATTAAAAAACTCCATTCAAACCAATTTCGGTGATGATTACGTTTT...

CDS

Download CDS FASTA

1296 bp · LXL04_018883|LXL04_018883|OH1004|CDS

ATGACCTATTATGGTGAGACTACGGTCATCTTCTCCGGTTATACAAGGGAAAAAAGAAAGAGTGTAAACCCTCGCCGGCACACCGGGAGTTCCATACCGTCCGCCTCCCAATTGCTTGCTTGCCTCGCCATGGACGCGACAGATATGGACGTAGAAGTAAATGAAGAACATAACCGCATTATTCCCGATTCCAATAGCTCGTCGAAGCGATTTGCATTAAAAAACTCCATTCAAACCAATTTCGGTGATGATTACGTTTT...

Protein

Download Protein FASTA

431 aa · LXL04_018883|LXL04_018883|OH1004|PROTEIN

MTYYGETTVIFSGYTREKRKSVNPRRHTGSSIPSASQLLACLAMDATDMDVEVNEEHNRIIPDSNSSSKRFALKNSIQTNFGDDYVFQIVPKEDWTSMAVSLSSNTVKLYSPVTGQFVGECCRGQHSDSINHILFSGNILHTCSSDGTLRAWDTRSYQQVSCLNAGPSQEIFSFSFGGSGDNLLAAGCKSQILFWDWRNKKQVACLEESHLDDVTQVHFVPNEKNKLISASIDGLICTFDASGDINDDESMQSVINVETS...

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_018883`
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_018883

Location Chr04:19601448-19604336 (-)

Description Similar to GTS1: WD repeat-containing protein GTS1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g47790`	Involved in the control of plant growth development.	GIGANTUS1 (GTS1), a member of Transducin/WD40 protein superfamily, controls seed germination, growth and biomass accumulation through ribosome-biogenesis protein interactions in Arabidopsis thaliana.2014 · DOI: 10.1186/1471-2229-14-37

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_018883 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0010029 regulation of seed germination Biological Process

GO:0040008 regulation of growth Biological Process

GO:0005634 nucleus Cellular Component

KEGG gene cross-reference

ath:AT2G47790

bta:539045

ddi:DDB_G0283635

mmu:72338

rno:314243

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.

Nucleus0.799

Rank 1 · LXL04_018883 · OH-1004

Cytoplasm0.314

Rank 2 · LXL04_018883 · OH-1004

Mitochondrion0.035

Rank 3 · LXL04_018883 · OH-1004

Cell membrane0.029

Rank 4 · LXL04_018883 · OH-1004

Lysosome / Vacuole0.021

Rank 5 · LXL04_018883 · 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.

PF24807.2WD40_CDC20-Fz76-299 aa

PF23381.2Beta-prop_IFT122_1st94-290 aa

PF25175.2Beta-prop_WDR596-292 aa

PF24796.2WDR5597-290 aa

PF24814.2WD40_Prp1998-233 aa

PF25174.2Beta-prop_THOC3101-203 aa

PF25173.2Beta-prop_WDR3_1st102-242 aa

PF25172.2Beta-prop_WDR3_2nd125-196 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018883	`PF24807.2`	WD40_CDC20-Fz	76	299	3.1e-12	47.1
LXL04_018883	`PF23381.2`	Beta-prop_IFT122_1st	94	290	2.3e-11	44.3
LXL04_018883	`PF25175.2`	Beta-prop_WDR5	96	292	8.8e-19	68.6
LXL04_018883	`PF24796.2`	WDR55	97	290	1.8e-10	41.1
LXL04_018883	`PF24814.2`	WD40_Prp19	98	233	2.8e-12	47.0
LXL04_018883	`PF25174.2`	Beta-prop_THOC3	101	203	1.1e-14	54.8
LXL04_018883	`PF25173.2`	Beta-prop_WDR3_1st	102	242	3.9e-16	60.0
LXL04_018883	`PF25172.2`	Beta-prop_WDR3_2nd	125	196	4.5e-09	36.7
LXL04_018883	`PF23414.2`	Beta-prop_EML_2	138	308	1.7e-07	31.6
LXL04_018883	`PF23409.2`	Beta-prop_EML	144	229	3.9e-07	30.6
LXL04_018883	`PF25171.2`	Beta-prop_WDR36-Utp21_1st	168	236	3.7e-11	43.7
LXL04_018883	`PF25174.2`	Beta-prop_THOC3	169	309	1.1e-14	54.8
LXL04_018883	`PF29037.1`	DSE1_N	181	255	1.6e-06	28.2
LXL04_018883	`PF23609.2`	Beta-prop_EIPR1	182	241	4e-07	30.5

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q944S2`	Arabidopsis thaliana	WD repeat-containing protein GTS1	62.760%	Swiss-Prot	strong database homology

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