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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

TkA05G003220
Reference: TK1151 Chr: Chr05 Coordinates: 965313-967206 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

975 bp · TkA05G003220|TK1151|cDNA

GAAAGTCAGAAACCTCTTCTTCTCATCACTGTCCTAATTCCTCTACGATCGAATTTGAAAGATGGCGGAGATGGCGGTCGGCGGCGACGTTCCAACGAATAACACCATATACATCAACAATCTGAACGAGAAAACAAAACTTGATGAGTTAAAGAAATCGCTGCAAGCTGTGTTCTCGCAATTTGGCAAAATCCTGGAGATACTTGCGTTTAAAACCCTAAAACACAAGGGTCAAGCGTGGGTTGTTTTTGAGGACGTTT...

CDS

Download CDS FASTA

735 bp · TkA05G003220|TK1151|CDS

ATGGCGGAGATGGCGGTCGGCGGCGACGTTCCAACGAATAACACCATATACATCAACAATCTGAACGAGAAAACAAAACTTGATGAGTTAAAGAAATCGCTGCAAGCTGTGTTCTCGCAATTTGGCAAAATCCTGGAGATACTTGCGTTTAAAACCCTAAAACACAAGGGTCAAGCGTGGGTTGTTTTTGAGGACGTTTCATCCGCCACCAGTGCCCTCAAGCAGATGCAGGGCTTTCCATTCTACGACAAACCTATGAG...

Protein

Download Protein FASTA

244 aa · TkA05G003220|TK1151|PROTEIN

MAEMAVGGDVPTNNTIYINNLNEKTKLDELKKSLQAVFSQFGKILEILAFKTLKHKGQAWVVFEDVSSATSALKQMQGFPFYDKPMRIQYAKTKSDVIAKSDGTFVPRERRKRHEEKGKKRKGQHDGNQAAVVNQGYAGAYGGPPPLSQLPYMGGGAKSGMPEAPAPPNSILFVQKLPHQTSSMMLQMLFGQHQGFKEVRMVEAKPGIAFIEYGDEMQATVAMHSLQGFKINPDSPMLITYAKK

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 IDTkA05G003220
TK1151 IDTkA05G003220
OH-1004 IDLXL04_018896
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)100.000
Protein coverage (%)TK1151 100.000 / OH-1004 100.000
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 versionTK1151 / GWHBCHF00000000
Open Full ID Mapping
SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene IDTkA05G003220
LocationChr05:965313-967206 (-)
DescriptionSimilar to U1A: U1 small nuclear ribonucleoprotein A
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g47580 Involved in nuclear pre-mRNA splicing (By similarity). No verified direct reference in this release
At1g06960 Involved in nuclear pre-mRNA splicing. No verified direct reference in this release
At2g30260 Involved in nuclear pre-mRNA splicing. No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
UniProt: A2Y0J7 Involved in nuclear pre-mRNA splicing. No verified direct reference in this release
Os05g0154800 Involved in nuclear pre-mRNA splicing. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_018896 · 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:0000354 cis assembly of pre-catalytic spliceosome Biological Process
GO:0000398 mRNA splicing, via spliceosome Biological Process
GO:0006397 mRNA processing Biological Process
GO:0008380 RNA splicing Biological Process
GO:0009631 cold acclimation Biological Process
GO:0005634 nucleus Cellular Component
GO:0005654 nucleoplasm Cellular Component
GO:0005681 spliceosomal complex Cellular Component
GO:0005685 U1 snRNP Cellular Component
GO:0005686 U2 snRNP Cellular Component
GO:0005730 nucleolus Cellular Component
GO:0005737 cytoplasm Cellular Component
KEGG gene cross-reference
ath:AT1G06960
ath:AT2G30260
ath:AT2G47580
dosa:Os05g0154800
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.

Nucleus0.845
Rank 1 · TkA05G003220 · TK1151
Cytoplasm0.354
Rank 2 · TkA05G003220 · TK1151
Cell membrane0.043
Rank 3 · TkA05G003220 · TK1151
Mitochondrion0.027
Rank 4 · TkA05G003220 · TK1151
Endoplasmic reticulum0.025
Rank 5 · TkA05G003220 · 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.

PF13893RRM_511-94 aa
PF19977xRRM11-40 aa
PF15023DUF452312-77 aa
PF16842RRM_occluded14-88 aa
PF08952DUF186614-88 aa
PF25701RRM_YTH114-39 aa
PF23085RRM_PARP14_315-75 aa
PF00076RRM_116-86 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA05G003220PF13893RRM_511947.7e-1245.7
TkA05G003220PF19977xRRM11400.01316.4
TkA05G003220PF15023DUF452312770.08713.3
TkA05G003220PF16842RRM_occluded14880.003717.8
TkA05G003220PF08952DUF186614880.1712.5
TkA05G003220PF25701RRM_YTH114390.212.2
TkA05G003220PF23085RRM_PARP14_315750.002418.6
TkA05G003220PF00076RRM_116863.9e-2381.8
TkA05G003220PF25015RBD_AKAP-17A30460.03514.3
TkA05G003220PF28976RRM_ACIN132810.0116.6
TkA05G003220PF29326RRM_MUD2_C49912.4e-0525.0
TkA05G003220PF25015RBD_AKAP-17A571200.03514.3
TkA05G003220PF06495Transformer921690.02315.5
TkA05G003220PF19977xRRM1111240.01316.4
TkA05G003220PF13893RRM_51532327.7e-1245.7
TkA05G003220PF19977xRRM1672190.01316.4

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
Q39244Arabidopsis thalianasp|Q39244|RU1A_ARATH U1 small nuclear ribonucleoprotein A67.200%Swiss-ProtHigh
Q8H1S6Arabidopsis thalianasp|Q8H1S6|RU2B2_ARATH U2 small nuclear ribonucleoprotein B'' 251.300%Swiss-ProtHigh
O22922Arabidopsis thalianasp|O22922|RU2B1_ARATH U2 small nuclear ribonucleoprotein B''52.700%Swiss-ProtHigh
A2Y0J7Oryza sativa subsp. indicasp|A2Y0J7|RU1A_ORYSI U1 small nuclear ribonucleoprotein A69.900%Swiss-ProtHigh
Q0DKM4Oryza sativa subsp. japonicasp|Q0DKM4|RU1A_ORYSJ U1 small nuclear ribonucleoprotein A69.900%Swiss-ProtHigh

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