General information for g13188.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein Tob1.
Parent gene
- The parent gene g13188 is located on chr_1: 28428045..28430755 (+ 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_1 | g13188 | g13188.t3 | isoform | g13188.t3 | 28422980 | 28428682 |
| chr_1 | g13188 | g13188.t3 | exon | g13188.t3.exon1 | 28422980 | 28423132 |
| chr_1 | g13188 | g13188.t3 | cds | g13188.t3.CDS1 | 28422980 | 28423132 |
| chr_1 | g13188 | g13188.t3 | exon | g13188.t3.exon2 | 28428062 | 28428238 |
| chr_1 | g13188 | g13188.t3 | cds | g13188.t3.CDS2 | 28428062 | 28428238 |
| chr_1 | g13188 | g13188.t3 | exon | g13188.t3.exon3 | 28428330 | 28428682 |
| chr_1 | g13188 | g13188.t3 | cds | g13188.t3.CDS3 | 28428330 | 28428680 |
| chr_1 | g13188 | g13188.t3 | TSS | g13188.t3 | NA | NA |
| chr_1 | g13188 | g13188.t3 | TTS | g13188.t3 | NA | NA |
Sequences
>g13188.t3 Gene=g13188 Length=683
ATGCACATTGAGATTCAAGTTGCATTGAACTTTGTCATATCGTACCTTTACAATAAGCTT
CCACGTCGGAGGGTCAATATCTTTGGCGAGGAGTTAGAGAAAGCATTAAAGCACAAATTT
CAAGGGCACTGGTATCCTGATAAGCCATTCAAAGGCTCAGCATTTCGATGCCTAAAAACA
GGTGAACCGATTGATGTTGTACTAGAAATTGCTGCACGTGAAAGTGGCGTACCAATTGGT
GACATTTTAGAGAATTTACCAGCCGAACTGTCTGTTTGGGTTGATCCAGGCGAAGTTTCA
TATCGTATTGGTGAAAAGGGTGCGGTCAAGATTCTCTATTCGGAACAGAAAAACGATTCA
CCCGATGATAACAATGCAGATCGCGAAGTGACGACAACATTCAATCCCGAGGCACAATGT
TTTCGTCCTATTGAAATTTTGAGCTCATCACTCAATGGTATGACCTTGACCTTGAGTCCA
AAAAGCTCACCAAATGATTCCTCACCGACATCATCGACGAGTCCAATGTACAAGAATAAT
AGTCCCTGCAATGGCAGCAATAATGGATCAAATAATGCTACAACATTCCTTGGACGTCAA
GAGCCTGTACTCTTTACGACTGCGACATTTGCACAAACGAAATTCGGCAGCACAAAATTG
AAGAACAATTCAAAACGCAACAA
>g13188.t3 Gene=g13188 Length=227
MHIEIQVALNFVISYLYNKLPRRRVNIFGEELEKALKHKFQGHWYPDKPFKGSAFRCLKT
GEPIDVVLEIAARESGVPIGDILENLPAELSVWVDPGEVSYRIGEKGAVKILYSEQKNDS
PDDNNADREVTTTFNPEAQCFRPIEILSSSLNGMTLTLSPKSSPNDSSPTSSTSPMYKNN
SPCNGSNNGSNNATTFLGRQEPVLFTTATFAQTKFGSTKLKNNSKRN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g13188.t3 | Gene3D | G3DSA:1.20.120.1120 | - | 1 | 123 | 1.0E-48 |
| 2 | g13188.t3 | PANTHER | PTHR17537:SF5 | TOB, ISOFORM A | 1 | 226 | 3.0E-92 |
| 3 | g13188.t3 | PANTHER | PTHR17537 | TRANSDUCER OF ERBB2 TOB | 1 | 226 | 3.0E-92 |
| 5 | g13188.t3 | PRINTS | PR00310 | Anti-proliferative protein BTG1 family signature | 29 | 58 | 1.2E-18 |
| 6 | g13188.t3 | PRINTS | PR00310 | Anti-proliferative protein BTG1 family signature | 59 | 88 | 1.2E-18 |
| 4 | g13188.t3 | PRINTS | PR00310 | Anti-proliferative protein BTG1 family signature | 89 | 118 | 1.2E-18 |
| 1 | g13188.t3 | Pfam | PF07742 | BTG family | 1 | 110 | 4.4E-37 |
| 9 | g13188.t3 | ProSitePatterns | PS01203 | BTG family signature 2. | 86 | 105 | - |
| 8 | g13188.t3 | SMART | SM00099 | btg1_nr | 1 | 106 | 8.8E-53 |
| 7 | g13188.t3 | SUPERFAMILY | SSF160696 | BTG domain-like | 1 | 115 | 6.41E-42 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K14443 (protein Tob/BTG)
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. There were no conditions that were differentially expressed