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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

TkA07G399820
Reference: TK1151 Chr: Chr07 Coordinates: 100460776-100466785 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2040 bp · TkA07G399820|TK1151|cDNA

TAATCAATAGGGCAAAACGGAGACCGGACCACCCTTTACCTTTTTCTTCGCGTCTTCCTTCGAAAAACAAAACCTTTGCTGCCATTTCTTCCCTTGGAGCCACTAGAGCTTGATCCGCACTTTCAACTAGATTTTCCCAGGCAATAACTGAGACTCTTATTTCCTCAAATGGCCAATAATTCTCAATATCCTGGCATACAGCCTCCTAGACCTCCTGTTGCTCAAATGGGCCCACCCCAAAACACATATCCATCAGTACC...

CDS

Download CDS FASTA

2727 bp · TkA07G399820|TK1151|CDS

ATGGCCAATAATTCTCAATATCCTGGCATACAGCCTCCTAGACCTCCTGTTGCTCAAATGGGCCCACCCCAAAACACATATCCATCAGTACCAATGCAATTTCGTGCAGCAGGTCCACCTCGGCCCCCACCCCAATACATGCCATTGGTGTCTCAACAGTTTTTACCTGTAGGGAGGCCACCTATGCAACACCTACCGCCACATGGCATGGTCCCACCCCCCGCCCCACCCGCCCCCCAACCTTTTTCACTGCCAGATGG...

Protein

Download Protein FASTA

908 aa · TkA07G399820|TK1151|PROTEIN

MANNSQYPGIQPPRPPVAQMGPPQNTYPSVPMQFRAAGPPRPPPQYMPLVSQQFLPVGRPPMQHLPPHGMVPPPAPPAPQPFSLPDGSRVAFSITYNQLSTSATSQVHISTEAASQYQTTSLINNNNNNNNNNIPSLPLLQPADQTPPDAPSVPVTNDVPKAVEKTPSDWIEHTSRNGKIYYHNKKTKLSSWEKPLDLMTPIERADASTDWKECIAPIGRKYYYNKVTKQSKWKIPDELKVAREQVKSESKTKNHELTKD...

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 IDTkA07G399820
TK1151 IDTkA07G399820
OH-1004 IDLXL04_030365
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)97.600
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 IDTkA07G399820
LocationChr07:100460776-100466785 (+)
DescriptionSimilar to PRP40A: Pre-mRNA-processing protein 40A
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g44910 Binds the phosphorylated C-terminal domain (CTD) of the largest subunit of RNA polymerase II and functions as a scaffold for RNA processing machineries (Probable). No verified direct reference in this release
At3g19670 Binds the phosphorylated C-terminal domain (CTD) of the largest subunit of RNA polymerase II and functions as a scaffold for RNA processing machineries.
Arabidopsis thaliana PRP40s are RNA polymerase II C-terminal domain-associating proteins.2009 · DOI: 10.1016/j.abb.2009.01.004

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_030365 · 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:0000395 mRNA 5'-splice site recognition Biological Process
GO:0000398 mRNA splicing, via spliceosome Biological Process
GO:0007010 cytoskeleton organization Biological Process
GO:0008360 regulation of cell shape Biological Process
GO:0008380 RNA splicing Biological Process
GO:0016477 cell migration Biological Process
GO:0032465 regulation of cytokinesis Biological Process
GO:0045292 mRNA cis splicing, via spliceosome Biological Process
GO:0051301 cell division Biological Process
GO:0000243 commitment complex Cellular Component
GO:0005634 nucleus Cellular Component
GO:0005654 nucleoplasm Cellular Component
KEGG gene cross-reference
ath:AT1G44910
ath:AT3G19670
hsa:55660
mmu:56194
spo:2543409
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.

Nucleus0.950
Rank 1 · TkA07G399820 · TK1151
Cytoplasm0.118
Rank 2 · TkA07G399820 · TK1151
Cell membrane0.023
Rank 3 · TkA07G399820 · TK1151
Endoplasmic reticulum0.010
Rank 4 · TkA07G399820 · TK1151
Mitochondrion0.010
Rank 5 · TkA07G399820 · 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.

PF30846CEP164_N166-197 aa
PF00397WW167-195 aa
PF23517WW_TCERG1177-199 aa
PF30846CEP164_N207-241 aa
PF00397WW210-236 aa
PF23517WW_TCERG1219-240 aa
PF03992ABM363-382 aa
PF01846FF368-417 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA07G399820PF30846CEP164_N1661975.5e-0523.8
TkA07G399820PF00397WW1671953.1e-1969.4
TkA07G399820PF23517WW_TCERG11771996e-0729.3
TkA07G399820PF30846CEP164_N2072415.5e-0523.8
TkA07G399820PF00397WW2102363.1e-1969.4
TkA07G399820PF23517WW_TCERG12192406e-0729.3
TkA07G399820PF03992ABM3633826.07.8
TkA07G399820PF01846FF3684172.6e-45153.0
TkA07G399820PF23083FF_RHG35_4th3684041.8e-0628.8
TkA07G399820PF25432FF_PRPF40A3784031.3e-2176.8
TkA07G399820PF01846FF4354852.6e-45153.0
TkA07G399820PF23083FF_RHG35_4th4374891.8e-0628.8
TkA07G399820PF25432FF_PRPF40A4454721.3e-2176.8
TkA07G399820PF03992ABM4644886.07.8
TkA07G399820PF01846FF5035522.6e-45153.0
TkA07G399820PF23083FF_RHG35_4th5055511.8e-0628.8

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
B6EUA9Arabidopsis thalianasp|B6EUA9|PR40A_ARATH Pre-mRNA-processing protein 40A51.800%Swiss-ProtHigh
F4JCC1Arabidopsis thalianasp|F4JCC1|PR40B_ARATH Pre-mRNA-processing protein 40B43.400%Swiss-ProtMedium

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