TkA02G441310 | RubberDandelionOmics

Gene overview

TkA02G441310

Reference: TK1151 Chr: Chr02 Coordinates: 112191148-112194504 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2232 bp · TkA02G441310|TK1151|cDNA

CTCTTAGTGCCCTAAAATTAGATTTCTAATACATCCGCTCCATTCCTCTTCGCCTCGCCTCGCCTCCTCTTTCAGTCTCTCACAGTCACAGATCGCACTCGCCTCCTCCTGCTTCTAAATCCGAATCTTGTTGCTCCACTTCATCCGGCGACTTCACACCGAGTGCATTCCTTCTTCTCCGGCGACTTCACATGGACGACGAAATTGATGTTTTTCATAAGCAGAGAGATATAGTTCCATTAAACCTAGATGACGATACC...

CDS

Download CDS FASTA

1296 bp · TkA02G441310|TK1151|CDS

ATGAAGGATCCAAGTTCTCTTTCAAAAGAAGAACAAATGGACATTGTATTCAGTTCAGCTCCAGAATTAGTTGGTTTATTATCAGAGCTAAATGAAGCAGTTGACCAGCTCGAAACCAAAGTTGACCCAATTTTAATCAAACTTAAAGCAGAAAAGAATTTAAATAAATCCGGCATACAATTCATGGAATTAAAAAAACAACTTCTACTCTCATATTGTCAAGCAATCACCTTTCACCTTCTTTTAAAGTCTGAAGGGCA...

Protein

Download Protein FASTA

431 aa · TkA02G441310|TK1151|PROTEIN

MKDPSSLSKEEQMDIVFSSAPELVGLLSELNEAVDQLETKVDPILIKLKAEKNLNKSGIQFMELKKQLLLSYCQAITFHLLLKSEGHSVRDHPVLARLVDIKNLLDKMKPLDENVSFQVEEFLKNHTTTTMVEDSIFPNEIITTPIDSISLTKLESSETQKENKVETKIIDGGKRKRENEQRGLQSVEMLKVRAALEEKLKQKGVFNLNTTKRSDGANKNLKPLNGKLEARDDFDDDTFNIDGSQSKSKLSQLVTQIKKP...

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	`TkA02G441310`
TK1151 ID	TkA02G441310
OH-1004 ID	LXL04_014288
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 69.968 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
Source version	TK1151 / GWHBCHF00000000

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

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Basic Information and Functional Annotation

Gene ID TkA02G441310

Location Chr02:112191148-112194504 (-)

Description Similar to ngdn: Neuroguidin

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g43650`	Essential protein during embryogenesis.	Dual Role of a SAS10/C1D Family Protein in Ribosomal RNA Gene Expression and Processing Is Essential for Reproduction in Arabidopsis thaliana.2016 · DOI: 10.1371/journal.pgen.1006408

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_014288 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

GO annotations (OH1004 source)

GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Biological Process

GO:0006325 chromatin organization Biological Process

GO:0006364 rRNA processing Biological Process

GO:0006417 regulation of translation Biological Process

GO:0042274 ribosomal small subunit biogenesis Biological Process

GO:0000775 chromosome, centromeric region Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0030175 filopodium Cellular Component

GO:0032040 small-subunit processome Cellular Component

GO:0003723 RNA binding Molecular Function

KEGG gene cross-reference

ath:AT2G43650

bta:539602

dre:386642

rno:305258

spo:2541000

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.

Nucleus0.960

Rank 1 · TkA02G441310 · TK1151

Cytoplasm0.124

Rank 2 · TkA02G441310 · TK1151

Mitochondrion0.016

Rank 3 · TkA02G441310 · TK1151

Cell membrane0.011

Rank 4 · TkA02G441310 · TK1151

Extracellular0.005

Rank 5 · TkA02G441310 · TK1151

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.

PF04000Sas10_Utp327-107 aa

PF09368Sas10175-205 aa

PF04000Sas10_Utp3217-247 aa

PF09368Sas10358-429 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA02G441310	`PF04000`	Sas10_Utp3	27	107	1.7e-17	64.5
TkA02G441310	`PF09368`	Sas10	175	205	9e-22	78.1
TkA02G441310	`PF04000`	Sas10_Utp3	217	247	1.7e-17	64.5
TkA02G441310	`PF09368`	Sas10	358	429	9e-22	78.1

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
`Q8L3P4`	Arabidopsis thaliana	sp\|Q8L3P4\|THAL_ARATH Protein THALLO	48.700%	Swiss-Prot	Medium

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