General information for g5647.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5647 is located on chr_2: 10882166..10884280 (+ 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 | g5647 | g5647.t3 | isoform | g5647.t3 | 10872870 | 10884280 |
| chr_2 | g5647 | g5647.t3 | exon | g5647.t3.exon1 | 10872870 | 10872876 |
| chr_2 | g5647 | g5647.t3 | exon | g5647.t3.exon2 | 10879971 | 10880093 |
| chr_2 | g5647 | g5647.t3 | exon | g5647.t3.exon3 | 10880615 | 10881371 |
| chr_2 | g5647 | g5647.t3 | cds | g5647.t3.CDS1 | 10880642 | 10881371 |
| chr_2 | g5647 | g5647.t3 | exon | g5647.t3.exon4 | 10884219 | 10884280 |
| chr_2 | g5647 | g5647.t3 | cds | g5647.t3.CDS2 | 10884219 | 10884226 |
| chr_2 | g5647 | g5647.t3 | TTS | g5647.t3 | 10884274 | 10884274 |
| chr_2 | g5647 | g5647.t3 | TSS | g5647.t3 | NA | NA |
Sequences
>g5647.t3 Gene=g5647 Length=949
AAAAAAATATTTTCAAGTGTCAAGCAATAAACGCGTATAAATTATTGAAAGTGAAAGCAG
TAAACCAAAGTTGAATTTTTTGAAAAATAATTCGATTGAAAAATTTATGAAAGTACAATA
AAGTACCAAAATAAACCAAAGTTCTGACTTTCTAAAAATGAATATGAACAAGGGTGATAA
TAAAGAGAAAATGGGAGGAAAATTGACTCATGTTGAATTAGAAAGTACTGAAGGTGGAAA
AGAAAAGTTGACTCATGTTGAAATACAAGGCACTGGAGGTGGAAAAGGAAGTGATGAAAA
GTGTCCAGAAATGAAAGGTGATGTTCAAAAAACAAGCTCTGAAAGCAAAATTCAAGGTCA
TTCTGGTATGATGCAAGGAATGAAAGGTGGCTCACAAGGAAAATGTCCAACAAGAGAATG
CAAGGAATTAAAAGGAAAAGTTGAGAAAGCTAGCTCAGAACATAAGGATAAGAATCAAGC
TCATTCCGAATTTATGAAAGAAATGGAGAAAAAAGGAAACAATGGAAAATGTCCAGCTCG
TGATTGTCCTAAAATGAAGGAAAAGTTTCAAAAATTAAGCTCTGACATGATGGGCAAGGA
TAAAGCTCATTCTGATATCAAAGAAGAAATGAATAAAGGAAAAGATGAAAAATGTCCAGG
ACGAGAATGCCCAGAATTAAAAGGAAAAGTCGAGAAAGCAAAGTCTGAAGGAAACATTCA
AGCTCATTCTGATATGATGCAAGGAAGAGGAAAAGGCACAGAAGGAAAATGTCCTGCAAG
AGAATGTCCAGAATTGAAGGAAAAAGTCGAGAAAGCAAGTTCTGAGCATAAAGACAAGCA
ACGAGCTCATTCCGAATGTATGAAAGAAATGGACAAAAAAGGAACTGCAATGTAACTCAT
AATTTATTTATTTATGTAATCAATAAAAAAAGCTTGAAGCAATAAAAAA
>g5647.t3 Gene=g5647 Length=245
MNMNKGDNKEKMGGKLTHVELESTEGGKEKLTHVEIQGTGGGKGSDEKCPEMKGDVQKTS
SESKIQGHSGMMQGMKGGSQGKCPTRECKELKGKVEKASSEHKDKNQAHSEFMKEMEKKG
NNGKCPARDCPKMKEKFQKLSSDMMGKDKAHSDIKEEMNKGKDEKCPGRECPELKGKVEK
AKSEGNIQAHSDMMQGRGKGTEGKCPARECPELKEKVEKASSEHKDKQRAHSECMKEMDK
KGTAM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g5647.t3 | Coils | Coil | Coil | 88 | 108 | - |
| 6 | g5647.t3 | Coils | Coil | Coil | 210 | 230 | - |
| 4 | g5647.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 22 | 67 | - |
| 2 | g5647.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 89 | 245 | - |
| 3 | g5647.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 89 | 186 | - |
| 1 | g5647.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 202 | 245 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5647/g5647.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5647.t3.fa.iupred3.txt does not exist
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