General information for g8223.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g8223 is located on chr_2: 29113258..29114032 (- 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 | g8223 | g8223.t2 | TTS | g8223.t2 | 29113122 | 29113122 |
| chr_2 | g8223 | g8223.t2 | isoform | g8223.t2 | 29113258 | 29113950 |
| chr_2 | g8223 | g8223.t2 | exon | g8223.t2.exon1 | 29113258 | 29113950 |
| chr_2 | g8223 | g8223.t2 | cds | g8223.t2.CDS1 | 29113258 | 29113797 |
| chr_2 | g8223 | g8223.t2 | TSS | g8223.t2 | 29114110 | 29114110 |
Sequences
>g8223.t2 Gene=g8223 Length=693
AAGCAGGAACCATCAGAATCAAAACTCGAAGCTCGATCTGCTTTAAATAAAGCACTTGAA
GCTGCAGAAGCTGAAAATGAAAGAGATCAAGATTTAGATGATGATTACGGTGATGACGCA
GATGATAAAATTGATGATAGACAAGATGAAGAAATGCCCGATGAAGAGGAAAATGACGAT
GAAGATTTCACTCCTACAACAACAAAACAAACAAAATATACAACAAAAATTCAACAACCA
AAGCCAGTTCAACAAGCTTCGTATATTATGAAACTATTTGATAGAAGTGTCAATCTAGCC
AAATTTGATGAGGAAACACCTTTATATCCTTTATGTCGTGCATGGATGAAAAATCAACCG
AGAGCAACCAGTATAAAGTCTGAAAAGAGTTCCGAATCTTCTAATGTACAGACACTTGAG
GATGGAGATGTCATAGAAATTCCAAAAGTGCGTATTCGTAGTAAAACTAAACCTCTTCTT
TCACGACCCGATAACAAAATTAATAAGAAGGACTTTGACAAGAAAATTGATTCGGAAATA
TGGACTAAAGAAAAACTCTTTGAATACCACAAGAGCCGCTGGCAAGAAGAACGAGAACGA
CATATTGAAAATTCTAGAGTCTTTGAAGAGAAGCACTTTGCTGCAAACTTTGAACTGCTT
GAATCCTTGATGAAGGAAGATGGCGATGAGTAA
>g8223.t2 Gene=g8223 Length=179
MPDEEENDDEDFTPTTTKQTKYTTKIQQPKPVQQASYIMKLFDRSVNLAKFDEETPLYPL
CRAWMKNQPRATSIKSEKSSESSNVQTLEDGDVIEIPKVRIRSKTKPLLSRPDNKINKKD
FDKKIDSEIWTKEKLFEYHKSRWQEERERHIENSRVFEEKHFAANFELLESLMKEDGDE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g8223.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 29 | - |
| 2 | g8223.t2 | PANTHER | PTHR31336 | LIN37 HOMOLOG | 21 | 174 | 9.9E-23 |
| 1 | g8223.t2 | Pfam | PF15306 | LIN37 | 30 | 169 | 1.4E-27 |
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:0017053 | transcription repressor complex | CC |
KEGG
Orthology
- This transcript has been annotated with K21774 (protein lin-37)
Pathway
- This transcript belongs to the following pathways
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.
