General information for g8223.t1
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.t1 | TTS | g8223.t1 | 29113122 | 29113122 |
| chr_2 | g8223 | g8223.t1 | isoform | g8223.t1 | 29113258 | 29114032 |
| chr_2 | g8223 | g8223.t1 | exon | g8223.t1.exon1 | 29113258 | 29113961 |
| chr_2 | g8223 | g8223.t1 | cds | g8223.t1.CDS1 | 29113258 | 29113961 |
| chr_2 | g8223 | g8223.t1 | exon | g8223.t1.exon2 | 29114020 | 29114032 |
| chr_2 | g8223 | g8223.t1 | cds | g8223.t1.CDS2 | 29114020 | 29114032 |
| chr_2 | g8223 | g8223.t1 | TSS | g8223.t1 | 29114110 | 29114110 |
Sequences
>g8223.t1 Gene=g8223 Length=717
ATGGCATCTAAAGCTAAAGCGATAAAGCAGGAACCATCAGAATCAAAACTCGAAGCTCGA
TCTGCTTTAAATAAAGCACTTGAAGCTGCAGAAGCTGAAAATGAAAGAGATCAAGATTTA
GATGATGATTACGGTGATGACGCAGATGATAAAATTGATGATAGACAAGATGAAGAAATG
CCCGATGAAGAGGAAAATGACGATGAAGATTTCACTCCTACAACAACAAAACAAACAAAA
TATACAACAAAAATTCAACAACCAAAGCCAGTTCAACAAGCTTCGTATATTATGAAACTA
TTTGATAGAAGTGTCAATCTAGCCAAATTTGATGAGGAAACACCTTTATATCCTTTATGT
CGTGCATGGATGAAAAATCAACCGAGAGCAACCAGTATAAAGTCTGAAAAGAGTTCCGAA
TCTTCTAATGTACAGACACTTGAGGATGGAGATGTCATAGAAATTCCAAAAGTGCGTATT
CGTAGTAAAACTAAACCTCTTCTTTCACGACCCGATAACAAAATTAATAAGAAGGACTTT
GACAAGAAAATTGATTCGGAAATATGGACTAAAGAAAAACTCTTTGAATACCACAAGAGC
CGCTGGCAAGAAGAACGAGAACGACATATTGAAAATTCTAGAGTCTTTGAAGAGAAGCAC
TTTGCTGCAAACTTTGAACTGCTTGAATCCTTGATGAAGGAAGATGGCGATGAGTAA
>g8223.t1 Gene=g8223 Length=238
MASKAKAIKQEPSESKLEARSALNKALEAAEAENERDQDLDDDYGDDADDKIDDRQDEEM
PDEEENDDEDFTPTTTKQTKYTTKIQQPKPVQQASYIMKLFDRSVNLAKFDEETPLYPLC
RAWMKNQPRATSIKSEKSSESSNVQTLEDGDVIEIPKVRIRSKTKPLLSRPDNKINKKDF
DKKIDSEIWTKEKLFEYHKSRWQEERERHIENSRVFEEKHFAANFELLESLMKEDGDE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8223.t1 | Coils | Coil | Coil | 13 | 40 | - |
| 4 | g8223.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 89 | - |
| 3 | g8223.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 34 | 70 | - |
| 5 | g8223.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 75 | 89 | - |
| 2 | g8223.t1 | PANTHER | PTHR31336 | LIN37 HOMOLOG | 10 | 233 | 3.4E-23 |
| 1 | g8223.t1 | Pfam | PF15306 | LIN37 | 89 | 228 | 2.2E-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.
