General information for g4787.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Transcription-associated protein 1.
Parent gene
- The parent gene g4787 is located on chr_2: 4976704..4982894 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_2 | g4787 | g4787.t3 | TSS | g4787.t3 | 4964358 | 4964358 |
| chr_2 | g4787 | g4787.t3 | isoform | g4787.t3 | 4964773 | 4965986 |
| chr_2 | g4787 | g4787.t3 | exon | g4787.t3.exon1 | 4964773 | 4964841 |
| chr_2 | g4787 | g4787.t3 | exon | g4787.t3.exon2 | 4964896 | 4965080 |
| chr_2 | g4787 | g4787.t3 | exon | g4787.t3.exon3 | 4965142 | 4965986 |
| chr_2 | g4787 | g4787.t3 | cds | g4787.t3.CDS1 | 4965409 | 4965984 |
| chr_2 | g4787 | g4787.t3 | TTS | g4787.t3 | NA | NA |
Sequences
>g4787.t3 Gene=g4787 Length=1099
ATGAAAACCTTCTTAAAAGTATTACAAGAAGGAGAATGCCATTTCTTTGCTGATTTCAAT
ATACAACAGATGAGGAAGCTGATTTTGGAAATGATTCATCGTTTGCCAGTCTCTGAAGTT
GTTCGTCCTTATGTTAAAAGCATATTAACACTTATGCTAAAGCTATTGAAAACTGACAAT
GAAGATAATGTTTTAGTGTGTTGAGAATTATCATTGATCTGCATAAACAATATAGACCAA
CATTTCATCCAGAGATTCAACATTTTATCGCTTATGTACGCAATATTTATTCAGATCTGC
CAAAAAATCTTAACAAAATCTTTGAACCTCGCGATCAAATTAGAGTGAAAGATTTAAAAG
AGATAAATCTTGAACAACTGTTGGGTGAAATTTATTCAGTAACGACTATTTATGTTGAGA
AACAAGAAATTGAAGGGAAAGCTGCAAATTCATTCACTTTGCTTCCTCGTGGTGTAAATT
CTCTTAAAGTTCTGCAAGAATTGCCAATAATTTTGGTTCTGATGTATCAAATTTACAAGC
AAAGTGTGCATCAAGAAATTGTAGAATTTATTCCATTAATTATGACAACAATTGCATTAC
AACCATCACCAGTACATCGTGCAATGCCAAATTTTAATCGAGAAATCTTTGTTGATTTCA
TGAGTGCTCAAATCAAAGCACTTTCATTTTTGGCTTATATCGTTCGAACATTTTTGGCGC
AATTTCAAGAAGTAATTAATGCTCATGCAACACAAATGGTCGATGGCATGATTTCACTTC
TTCGTTTATGTCCAATGGAAGTTGCAAGCACAAGAAAAGAATTACTTGTTGCTACTCGAC
ATATTTTAGCAACTGATTTAAGGAACAAATTTGTCAGTTCTATAGAATTGTTATTTGATG
AAGATTTACTTCTTGGTAGATGCTCATATAGCAATGAATCATTAAAACCACTTGCATATT
CTACACTTGCTGACTTAATTCATCATGTTCGTCAACATCTTAAACTTGATATCCTTACTA
AAGCAGTATATCTCTTCTCAAAAAATGTTCATGATGAATCTCTTCCAACATCGATTCAAA
CAATGTCTTGCAAACTTCT
>g4787.t3 Gene=g4787 Length=192
MYQIYKQSVHQEIVEFIPLIMTTIALQPSPVHRAMPNFNREIFVDFMSAQIKALSFLAYI
VRTFLAQFQEVINAHATQMVDGMISLLRLCPMEVASTRKELLVATRHILATDLRNKFVSS
IELLFDEDLLLGRCSYSNESLKPLAYSTLADLIHHVRQHLKLDILTKAVYLFSKNVHDES
LPTSIQTMSCKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g4787.t3 | PANTHER | PTHR11139:SF1 | TRANSFORMATION/TRANSCRIPTION DOMAIN-ASSOCIATED PROTEIN | 1 | 192 | 0.0e+00 |
| g4787.t3 | PANTHER | PTHR11139 | ATAXIA TELANGIECTASIA MUTATED ATM -RELATED | 1 | 192 | 0.0e+00 |
| g4787.t3 | SUPERFAMILY | SSF48371 | ARM repeat | 49 | 182 | 3.4e-05 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005634 | nucleus | CC |
| GO:0016573 | histone acetylation | BP |
| GO:0000123 | histone acetyltransferase complex | CC |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
