General information for g13889.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13889 is located on chr_1: 33135396..33135768 (- 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 | g13889 | g13889.t2 | isoform | g13889.t2 | 33134558 | 33135334 |
| chr_1 | g13889 | g13889.t2 | exon | g13889.t2.exon1 | 33134558 | 33135334 |
| chr_1 | g13889 | g13889.t2 | cds | g13889.t2.CDS1 | 33134558 | 33134968 |
| chr_1 | g13889 | g13889.t2 | TSS | g13889.t2 | 33135922 | 33135922 |
| chr_1 | g13889 | g13889.t2 | TTS | g13889.t2 | NA | NA |
Sequences
>g13889.t2 Gene=g13889 Length=777
GACGATGATGATGATTATGAGCCAGCTGACAATAAGAAAAAATCAAAGAAGGGAAAGAAA
CGTAAGGCACGAGGTGAAGAAAAATCAAAAAAGCAAAAGAAAAAAAAGCGCAGGAAGAAT
GATTCAGAAGAAGAAGAGGAAGCAGTAGAATCTCCCGAAGAGTATACACACTCGAGCAAA
AAAGGCCGCAAAAAGAAAGAAAAAGATCGCGATGAGCGCTCATCAAGACGCCATCAACCA
GCTGAAGAAGAACAAACAGCAGCTAATGATACACCATCAGTTGAAGAAGTCTGCCAACAA
CTAGATTTGAAAGATGTCGATATTACATATGAAGATAGCCACTATCAAAACTTAGTGACT
TATAAAATGTTTACACAATATGTTCGTCCTATTTTGACGAAAGAAAATCCAAAAGCACCC
AGCAGCAAACTCATGATGTTGATTGCTGCCAAATGGCGTGAGTTTTGTGAAGAAAATCCA
AACTTGAAAGATGAAAATGAGGGCGATGAAGAAGAACAAAAATCTGAAGAAGAGGAAGAA
GAAGAAGCAGATGAACCAGAGCCAGAATATCAACCCAAATCAAGTAGATCAAGAGCATCT
CGAAATGTTGAAAAACAATCGAAAGAAGAGCCAGAGGATGAGGATGATGATGATGATGGA
AAAAAGAAAAGTAAACGCTCGAGTGCACGAACAAGCAAAAGGGGAAAGAAGCAAAAAGTT
CCAACATTGAAGATTCGTTTTGGTAAAAAGAAGGACGCAAGTTCAGATGAAGAAAAG
>g13889.t2 Gene=g13889 Length=137
MFTQYVRPILTKENPKAPSSKLMMLIAAKWREFCEENPNLKDENEGDEEEQKSEEEEEEE
ADEPEPEYQPKSSRSRASRNVEKQSKEEPEDEDDDDDGKKKSKRSSARTSKRGKKQKVPT
LKIRFGKKKDASSDEEK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13889.t2 | Coils | Coil | Coil | 37 | 59 | - |
| 5 | g13889.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - |
| 2 | g13889.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 36 | 137 | - |
| 7 | g13889.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 41 | 65 | - |
| 6 | g13889.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 66 | 86 | - |
| 4 | g13889.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 104 | 122 | - |
| 3 | g13889.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 123 | 137 | - |
| 1 | g13889.t2 | Pfam | PF08073 | CHDNT (NUC034) domain | 1 | 38 | 2.1E-18 |
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. There were no conditions that were differentially expressed