General information for g5936.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5936 is located on chr_2: 12908497..12909940 (+ 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 | g5936 | g5936.t13 | TSS | g5936.t13 | 12907679 | 12907679 |
| chr_2 | g5936 | g5936.t13 | isoform | g5936.t13 | 12907925 | 12909940 |
| chr_2 | g5936 | g5936.t13 | exon | g5936.t13.exon1 | 12907925 | 12908069 |
| chr_2 | g5936 | g5936.t13 | exon | g5936.t13.exon2 | 12908135 | 12908194 |
| chr_2 | g5936 | g5936.t13 | cds | g5936.t13.CDS1 | 12908160 | 12908194 |
| chr_2 | g5936 | g5936.t13 | exon | g5936.t13.exon3 | 12908253 | 12908324 |
| chr_2 | g5936 | g5936.t13 | cds | g5936.t13.CDS2 | 12908253 | 12908324 |
| chr_2 | g5936 | g5936.t13 | exon | g5936.t13.exon4 | 12908389 | 12908436 |
| chr_2 | g5936 | g5936.t13 | cds | g5936.t13.CDS3 | 12908389 | 12908436 |
| chr_2 | g5936 | g5936.t13 | exon | g5936.t13.exon5 | 12908492 | 12909940 |
| chr_2 | g5936 | g5936.t13 | cds | g5936.t13.CDS4 | 12908492 | 12908639 |
| chr_2 | g5936 | g5936.t13 | TTS | g5936.t13 | 12909909 | 12909909 |
Sequences
>g5936.t13 Gene=g5936 Length=1774
TTGACAATTTGACTTATCGAACTACTCCCGAAGACTTGAGACGAGTTTTTGAGCGATGCG
GTGATGTTGGTGACATTTATATTCCAAGAGATAGACATACTCGTGAGTCGAGAGGATTTG
CTTTTGTTCGATTTTATGACAAACGTGATGCTGAGGAAGCTCTTCAAGAAATGGATGGAA
GAATGCTTGATGGACGTGAATTGAGAGTGCAAATGGCCAGATATGGGAGACCTACATCTC
CACAAAGACGTTCTAACAGACACGATCGTCGCCGAAGATCCCGTTCGAGAGACCGTAGAG
GAGGTGGAGGTGGAAGACGCTCAAGATCACGTTCAAGAGACCGAAGAGGACGCCGTCGTT
CATACTCACGTTCCAAATCTCGTTCAAGATCAGCAAATAGTCGCAGCAACAGCAAATCTT
CACGCGATCGTTCACGCTCTCCAGTTCGTAAGAATCGCAGCTCAAGCAATTAAGCAGAGG
TGACACTTAAAATTGTTTGACAGCCGACTGCTAATGTGCTTCTGCAAAATATTATATTTG
CGTTCAAAAGGTACAATCGTTTTTCTATACATTTTTTTTCCTCCTAATTACTTTAATGAG
TTTAAAAATTTGTCTAAACAGTAAAAAAATCGTAACAAAATTTGATAAAGAAATGAAATA
TCTAATACTATAACTACTACTCTTTTGTTTGATAGAAAAATAAGCAAATTTCTTGATAGA
TTTTAAGCATTTTCAAGTTTTCCTATTTTAAAATAGACATTAAAACATACTTTATGAAAT
TATACGTGTGCTAAGGCAATTTATTTGTATTATTCTGTCATCTTTTAAAAACGAACAATC
AGTTCTTTTTTTAACAAATATAATCATTTTGTAATTTTAGCAATTATAAATGTCGCTATA
ATGAACACATGTCCTATCTTACACTTCCTTTAGAATACATTTTTTTTCTGTAAGGTTCAA
TATATATTTTGAGTTTATAAGACAAGAGAATTAACTTTTCTTGTCATAATAACATTTAAT
GAAGAAATTAATTGATATATACCAATCAATAATAATATGCATAAAAATATCAACATTTTA
AAAAATAAAAAATAATATTTTATCCTACTTTTACCTACATACAGGCCGCTGTTGTTGCCG
ATTTGGGCGGTGAATATTTTGTCCTGTAGTTCGTGTTATTGAGAAATGCATGTGAAACAC
AAGCAAGCCGATGCTGCTGCTGTAAACTGTTGGTGAAAATTGCTGACAATGTTTAAATTT
CATACCTGTGCAGTTGCTGGTGCTCGCTGTTTTTCATATGGCGGAGTAGAAAGAAAGGCA
GGCTGTTTCGCTGGTGGTGATGTTTTTGGGAAAGATAGAGAGGGAGAGAAAGAGAGAATG
TTGGTGTGTTTCGGGGAATATTTGCTGTTGGCCGAAAGAAAGAGAGAGAAATGCATAGTA
TCTGTTGCTGCTGCAGAAAATTATTTGTCATTTTTTTTGACTAATCCTGAGGCAAACATT
TAATTTCACATTTCTCTCACTTTAATCACTTTTTTCGCATATGTTTTATGTTCATTATTT
TCTGTTTTCCTGATCCTTACACATTCATGACAAATAGGATGAGCTTTGCTTCAATAACTA
TAAAAGCTTTACAGGTTGATAATTTTTTCTATAAATTCATAGCGAACACTGGTTTTAAAA
GGTAAGTAGTCATTTATTTAAAAATTCAAAATTAAGGAAGAATAAAACTTTTTAAAATCA
ACTTTAAGTACAATGTTTATTATTATAATTTAGT
>g5936.t13 Gene=g5936 Length=100
MDGRMLDGRELRVQMARYGRPTSPQRRSNRHDRRRRSRSRDRRGGGGGRRSRSRSRDRRG
RRRSYSRSKSRSRSANSRSNSKSSRDRSRSPVRKNRSSSN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g5936.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 100 | - |
| 1 | g5936.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 27 | 43 | - |
| 3 | g5936.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 52 | 69 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5936/g5936.t13; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5936.t13.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.
