General information for g8254.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g8254 is located on chr_2: 29355791..29357045 (- 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 | g8254 | g8254.t3 | isoform | g8254.t3 | 29355791 | 29357045 |
| chr_2 | g8254 | g8254.t3 | exon | g8254.t3.exon1 | 29355791 | 29356608 |
| chr_2 | g8254 | g8254.t3 | cds | g8254.t3.CDS1 | 29355793 | 29356599 |
| chr_2 | g8254 | g8254.t3 | exon | g8254.t3.exon2 | 29356824 | 29357045 |
| chr_2 | g8254 | g8254.t3 | TSS | g8254.t3 | 29357045 | 29357045 |
| chr_2 | g8254 | g8254.t3 | TTS | g8254.t3 | NA | NA |
Sequences
>g8254.t3 Gene=g8254 Length=1040
ATTCGTCTTTAGTCTCTTGACCAGTACAGTTTATATATAAATTTTTTCGTTTTATTAAGT
TTGATTATCATTTCTAACGACAAATTTGTGCTATTTAATAATTGCAAAATTAAAATAAGT
AGATGAAAAGTAAAAAATCTTCAAGTTTGATTGATAATTTTTTCATATTTTGATTACAAT
AAAAATCTACTTGGTGATCTCAAAAAAATTTACCGGCATAAGTGAAATAAAATGAGTAAT
TATGATCAGTATAGAGGACGTCGAGGTGGTCACAGTGGAAATTCTGATAGAAATTATGAG
CGAGAGAGAAGCAATCATTATCCAGATTATAGTAGAAACAGAGATAATAGTAGCAATAGA
GACTCTAATAGAAGAAATGAAGACAGAGGAAACGAATTTGGTCGTGGTTATGATTCAAGC
CGTAAAAGATTTCATGATGATGGTCCAAGTACATCAGGTACTTATCGTGGAAATTTTTCA
AAACGTGGCAGAGGTGGAAGAGGAGGCAGAGGCAGTGGAAACAAAAAAGATCCACGTCCA
GAATTCCCAAGTGAAATCGATTCTCGTCCTAAAAATTTCACAGAAAAAGTCGCTTCTTAT
AATCAGGGAGATGAAAGTGTTACACTCGTTACCAATTATTTTGAATTTAATTTGAGAAAA
TTCAGATCAAAAATTATTGTCACTATGTGCTTTGTTGATTTTAATCCTATGGTTGCGAAT
AAATGGGAGAAGAGTTATTTGATTGCTCAACATAAGGCACGACTGGGAACATATGTTTAC
GATAATTCTGCTTCTATTTATCTTGCACAGCCTCTTGAAAAAGGTGATAGGATTAGTCTT
GAAAGTAGAGGAAGAAATAATCAAACATATAGCATTATTTTGACAGCAAAAAACAATATA
TCACCAACTGATTCTATGTTTTTGACCGTTATTAATTTGATTATAAGACAAGCTATGATT
GCATGTAATTTTGACCTTATCGGACGAAATTACTTTGATCCTTCCACAGCATCTAACATG
GAACAATATAGATTACAAAT
>g8254.t3 Gene=g8254 Length=269
MSNYDQYRGRRGGHSGNSDRNYERERSNHYPDYSRNRDNSSNRDSNRRNEDRGNEFGRGY
DSSRKRFHDDGPSTSGTYRGNFSKRGRGGRGGRGSGNKKDPRPEFPSEIDSRPKNFTEKV
ASYNQGDESVTLVTNYFEFNLRKFRSKIIVTMCFVDFNPMVANKWEKSYLIAQHKARLGT
YVYDNSASIYLAQPLEKGDRISLESRGRNNQTYSIILTAKNNISPTDSMFLTVINLIIRQ
AMIACNFDLIGRNYFDPSTASNMEQYRLQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8254.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 115 | - |
| 5 | g8254.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 12 | 72 | - |
| 4 | g8254.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 93 | 115 | - |
| 1 | g8254.t3 | PANTHER | PTHR22891 | EUKARYOTIC TRANSLATION INITIATION FACTOR 2C | 52 | 268 | 1.4E-13 |
| 2 | g8254.t3 | PANTHER | PTHR22891:SF164 | PIWI-LIKE PROTEIN 1 | 52 | 268 | 1.4E-13 |
| 3 | g8254.t3 | SUPERFAMILY | SSF101690 | PAZ domain | 131 | 264 | 1.18E-5 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005515 | protein binding | MF |
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.
