General information for g14588.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Histone deacetylase complex subunit SAP30-like protein.
Parent gene
- The parent gene g14588 is located on chr_4: 1423405..1426712 (- 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_4 | g14588 | g14588.t1 | TTS | g14588.t1 | 1422694 | 1422694 |
| chr_4 | g14588 | g14588.t1 | isoform | g14588.t1 | 1422896 | 1423405 |
| chr_4 | g14588 | g14588.t1 | exon | g14588.t1.exon1 | 1422896 | 1423405 |
| chr_4 | g14588 | g14588.t1 | cds | g14588.t1.CDS1 | 1422896 | 1423405 |
| chr_4 | g14588 | g14588.t1 | TSS | g14588.t1 | 1423475 | 1423475 |
Sequences
>g14588.t1 Gene=g14588 Length=510
ATGAACGGAATCGATTCAAGTGACGAAAATGAAAAAATGGAGAATGAAGTGTGTTGTTTA
ATTGATGATGGCACCAAGTGCACACGAGTGGCTGGTAATGCATCATTTTCAAAACGTATA
CAAAAGGGCATCAGTCAACGCAAAATGAAGCTCTCTTTGGACTCGTATGCTCGCAGTCAA
TTTATCTGTGATTATCACAAGTCAAAAATACAAAGTGCAAGGTCAATCAAACGACATCAG
CGAACAACAATAAGTCGTGATTCAGATTCAGGAAGTGATTCGGAATCACCTGAAGTTGAT
TTTTATTCATTGCAAGTTCAGACGTTAAGACGCTACAAGAAATTTTACAAAGTGAGCACT
CGACCAGGATTGAATAAAGCGCAGCTGGCTGACATCATTTCAAAGCACTTCATGACCATC
CCGGTGAAGGAAAAGGAAGTTCTTGCGTACTTTATTTATAGTGTGAAGCATTCCAGTGGA
ATTCAAAATAATGTCAAAGGATTGGACTGA
>g14588.t1 Gene=g14588 Length=169
MNGIDSSDENEKMENEVCCLIDDGTKCTRVAGNASFSKRIQKGISQRKMKLSLDSYARSQ
FICDYHKSKIQSARSIKRHQRTTISRDSDSGSDSESPEVDFYSLQVQTLRRYKKFYKVST
RPGLNKAQLADIISKHFMTIPVKEKEVLAYFIYSVKHSSGIQNNVKGLD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g14588.t1 | Gene3D | G3DSA:3.40.1800.30 | - | 12 | 81 | 2.3E-26 |
| 7 | g14588.t1 | Gene3D | G3DSA:1.10.720.110 | - | 82 | 166 | 3.8E-30 |
| 5 | g14588.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 74 | 96 | - |
| 3 | g14588.t1 | PANTHER | PTHR13286 | SAP30 | 14 | 158 | 2.8E-56 |
| 4 | g14588.t1 | PANTHER | PTHR13286:SF7 | HISTONE DEACETYLASE COMPLEX SUBUNIT SAP30 | 14 | 158 | 2.8E-56 |
| 1 | g14588.t1 | Pfam | PF13866 | SAP30 zinc-finger | 14 | 81 | 6.0E-29 |
| 2 | g14588.t1 | Pfam | PF13867 | Sin3 binding region of histone deacetylase complex subunit SAP30 | 104 | 156 | 1.6E-22 |
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:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K19202 (histone deacetylase complex subunit SAP30)
Pathway
- This transcript belongs to the following pathways
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.
