General information for g13642.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13642 is located on chr_1: 31395871..31397394 (+ 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 | g13642 | g13642.t2 | TSS | g13642.t2 | 31394645 | 31394645 |
| chr_1 | g13642 | g13642.t2 | isoform | g13642.t2 | 31394771 | 31396105 |
| chr_1 | g13642 | g13642.t2 | exon | g13642.t2.exon1 | 31394771 | 31395871 |
| chr_1 | g13642 | g13642.t2 | cds | g13642.t2.CDS1 | 31395336 | 31395871 |
| chr_1 | g13642 | g13642.t2 | exon | g13642.t2.exon2 | 31395925 | 31396105 |
| chr_1 | g13642 | g13642.t2 | cds | g13642.t2.CDS2 | 31395925 | 31396105 |
| chr_1 | g13642 | g13642.t2 | TTS | g13642.t2 | 31396149 | 31396149 |
Sequences
>g13642.t2 Gene=g13642 Length=1282
ATGCTTAGATTTTCAACTAAAACACCTTATATATTTAAAGAACCAAATAAAATCATACAG
TATACAGATTTCGCACCAAAAAGAATATGGGCAATGTATAGGTAGAATAAAAATTTAAAA
ATAGTTTGATCCATTTTTAAAATAAAAATTAACAAAATTTAGACATGGAACACGATTGCC
TGGCAAAAAAATAATTTCAAAATACTTTGGTCTTATTGATATCGCAGAAAAATTACAGTT
TGCAAAAAATTTAACAGTTCAGGAGAAAGAACTTTTCAAAAATTGGAAACCTTTGAATAT
AAATTTAGAACATCAAAAATTTTTAACAAAAGAAGGTGAAGAAGAGCTTTTTCAGTTAGG
TGATCGGTTTCGAAAGCAATTTCCTCAACTTATAAATAATGAATCATCGTTTACTTTTAA
ATATACACCAACACAAAGAACTGAATTGTCTGCAAAAAAATTCATAGAAGGGCTTTTTCA
AAATGATTTCTTTGATTATACATTAGAAGAAGTAGCACGTGATGATACAATATTAAGGCC
TTATAAAGGATGTAATTTATGGAGAATGAATGTGAAAAAAAATCCTCGTACTTTAATTGA
GAAAAATAATCTCATCAAATCTCAACATGTCACTGCCGTTATCAATGAATTAAGAGAAAT
AACACAAATTGATTTTTTGGATTTTAAAGACATTGAACTTATATACACAATATGCGGTTT
TGAGACAGCATGGCGTCATCATTTATACAAGGAAAAGTCAATATGGTGTTTATTATTTAA
AAATGAAGAACATTTAAAAATCATGGAATATCTTGAAGATCTCGAATATTTTTGGGTCGA
TGGACCTGCATATGAAATAACTAGAAAAGTTGCATGCAAAACAGTAACAAATATGATTGA
ACTCCTTGATCCTAAAAATAACTTTGATAAAAATATGACATTTTATTTCACACATTCAGG
CACAATTTTAAAACTGCTAACATTTTTAGAACTTTATCAAGACAAATCGAATTTAACAGC
TGAAAAAATAGATAATGAACGCAAATGGCAAACTTCACAAATTGACACATTTTCTACAAA
CATCATTGCCATTCTTTATGATTCAATTAGGTATGGCCCACATATTCAGTTATTACATCA
AGAGAAGATTATCAACATACCAAATTGTGTAATGAATGAACATGGCATGTGTAAATTTGA
AGATTTCAAAAATTTGTACAAAGAAAAAATTAAAGAATGTAATTTGACTGATATTTGTGA
TAATAGAAAAGAAGAGTTATAA
>g13642.t2 Gene=g13642 Length=238
MNVKKNPRTLIEKNNLIKSQHVTAVINELREITQIDFLDFKDIELIYTICGFETAWRHHL
YKEKSIWCLLFKNEEHLKIMEYLEDLEYFWVDGPAYEITRKVACKTVTNMIELLDPKNNF
DKNMTFYFTHSGTILKLLTFLELYQDKSNLTAEKIDNERKWQTSQIDTFSTNIIAILYDS
IRYGPHIQLLHQEKIINIPNCVMNEHGMCKFEDFKNLYKEKIKECNLTDICDNRKEEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g13642.t2 | CDD | cd07061 | HP_HAP_like | 39 | 174 | 1.94111E-13 |
| 6 | g13642.t2 | Coils | Coil | Coil | 233 | 238 | - |
| 5 | g13642.t2 | Gene3D | G3DSA:3.40.50.1240 | - | 3 | 230 | 6.2E-47 |
| 2 | g13642.t2 | PANTHER | PTHR20963:SF47 | GH13296P | 2 | 235 | 9.4E-62 |
| 3 | g13642.t2 | PANTHER | PTHR20963 | MULTIPLE INOSITOL POLYPHOSPHATE PHOSPHATASE-RELATED | 2 | 235 | 9.4E-62 |
| 1 | g13642.t2 | Pfam | PF00328 | Histidine phosphatase superfamily (branch 2) | 13 | 190 | 2.7E-9 |
| 4 | g13642.t2 | SUPERFAMILY | SSF53254 | Phosphoglycerate mutase-like | 24 | 235 | 4.37E-34 |
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 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.
