General information for g5687.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5687 is located on chr_2: 11257043..11259984 (+ 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 | g5687 | g5687.t2 | TSS | g5687.t2 | 11253733 | 11253733 |
| chr_2 | g5687 | g5687.t2 | isoform | g5687.t2 | 11254688 | 11255404 |
| chr_2 | g5687 | g5687.t2 | exon | g5687.t2.exon1 | 11254688 | 11255057 |
| chr_2 | g5687 | g5687.t2 | cds | g5687.t2.CDS1 | 11254688 | 11255057 |
| chr_2 | g5687 | g5687.t2 | exon | g5687.t2.exon2 | 11255119 | 11255273 |
| chr_2 | g5687 | g5687.t2 | cds | g5687.t2.CDS2 | 11255119 | 11255273 |
| chr_2 | g5687 | g5687.t2 | exon | g5687.t2.exon3 | 11255338 | 11255404 |
| chr_2 | g5687 | g5687.t2 | cds | g5687.t2.CDS3 | 11255338 | 11255346 |
| chr_2 | g5687 | g5687.t2 | TTS | g5687.t2 | NA | NA |
Sequences
>g5687.t2 Gene=g5687 Length=592
ATGTCGAAGAAAAGCAATAAGAAAGATCAACAAAAAAGTTTATGGTACATCTGCGATAAA
TGTGGAATAAAAATTATTCATAATCAATTAAGTTCTCACTCAGAAAATACATGCTCAATT
TTCGGCATTTGTGAAAATGTTTTTACAACTAAACATATTAACTGCAGTGTTTTACCACAA
GAAATAGATCTAAAAGATGCTCCAATCATCTATCTTGAACGTTTTATATTTATTCCTGAG
ACAATTTGCAAACACTGTGACTTAAAGATGAATGGCTATGTATTGATTGAAATTGATGAA
AAAAAGTATGTGAAAAAGTCTTGGACAATTAGTGATAATCATCTGGATATGATATACACA
AATTCTAATGAAATCAATGAAGAACAAAAAGAAGAAAGCATAGTGAGAATATCAAAATTT
AATTCATCGATTAAAATTGCAAGACAGATCGTATTGAAACATAACGAAAATGTTCAAGAA
ACAATAGACATAGAACGACTCATTAGAGGAAAACTTAAAAATACAATACCATAAAAGAGA
AAGAAGAAGATGATATTGCAGATAAGTTATCAAAAATGAATTTAAATGAAAG
>g5687.t2 Gene=g5687 Length=177
MSKKSNKKDQQKSLWYICDKCGIKIIHNQLSSHSENTCSIFGICENVFTTKHINCSVLPQ
EIDLKDAPIIYLERFIFIPETICKHCDLKMNGYVLIEIDEKKYVKKSWTISDNHLDMIYT
NSNEINEEQKEESIVRISKFNSSIKIARQIVLKHNENVQETIDIERLIRGKLKNTIP
Protein features from InterProScan
No InterPro annotations for this transcript.
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5687/g5687.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5687.t2.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.
