General information for g3552.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Corepressor interacting with RBPJ 1.
Parent gene
- The parent gene g3552 is located on chr_3: 26398000..26398956 (- 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_3 | g3552 | g3552.t13 | TTS | g3552.t13 | 26397143 | 26397143 |
| chr_3 | g3552 | g3552.t13 | isoform | g3552.t13 | 26397216 | 26398434 |
| chr_3 | g3552 | g3552.t13 | exon | g3552.t13.exon1 | 26397216 | 26397929 |
| chr_3 | g3552 | g3552.t13 | cds | g3552.t13.CDS1 | 26397216 | 26397929 |
| chr_3 | g3552 | g3552.t13 | exon | g3552.t13.exon2 | 26398000 | 26398293 |
| chr_3 | g3552 | g3552.t13 | cds | g3552.t13.CDS2 | 26398000 | 26398287 |
| chr_3 | g3552 | g3552.t13 | exon | g3552.t13.exon3 | 26398359 | 26398434 |
| chr_3 | g3552 | g3552.t13 | TSS | g3552.t13 | 26398523 | 26398523 |
Sequences
>g3552.t13 Gene=g3552 Length=1084
ATGGGTAAAGGTTTCAATAATTATATGAGCAAGAAGTTCTTTCATCCAGCATCTCGAGAT
AATCTGAAACGAGTAAGTATGGATGGCAGAACAACAAGAGGAAGCATACAAGAAAAAGCA
AGAAGAATTGCGAGCACAGTATGAAAAAGAACAGAATTTACATGAAAACAAGTTGATGCT
AAGCAAAGAATCCAAGGACAAATTGGCACTTAACTTTATGTATGAACCACCACCTGGAAT
TAAAAAAGAGAGAGAAAAGGAAGAAAATGAACCTGAATACAAATTTGAATGGCAGAGAAA
ATACAATGCTCCCCGCGAAAGCTATTGCAAAGGAAATGAAGAAATAAGGGATCAACCATT
TGGAATCCAAGTTCGCAACGTAAGATGTATTAAATGTCACAAATACGGTCATATAAATAC
AGATAAAGAATGTTCTATGTTCAGTATGTCGATGAGTGAAGCGAGAAAGTTTCATTCAGA
TCAAGAACAGCAGCAATTATTAGCCAAAGGCGGAATTGAGTTAGAAGAACAATTGAAAGA
AGGAATGAAAGAAGATGGACTCGCATTGAAAAGAAATGCGTTGAGTTTAGAGCAGCAACA
AAAGCACAAAATTAAACAACAACTTATTCCAGATGAAGATGAGAAAAATGATGTACCAGA
AGCTGAATTTATTAAAGGATTGAGCAAGAAACAGAAGAAAGAATTGCTTAAGAAACTCAA
TTTAATAGAAAAGAAGCATAAGAAAAAGTCTGATGATTCGTCATCTGATGAAAGTTTAAA
AAAGAGAAAAAAGTCCTCAAAGAAAAAGAAGCGACATTATTCTAGTTCATCATCATCTAG
CGATGAGAAGCACTATAAAAAATCAAGCAAGAAAAATAACGAAAGGAATAATAATCCTAT
ATATGTACCTATTCCAGTAGCAGTTCCAATACCTGTTTATGACAAATATAATCGAGAAAG
GAAAAGATCAAGGGAACGCACTAATAGAGAGAGTTATCGTGAACGAAGCAGAGAGCATAA
AAGAAAGGATCGAAGTCGTTCAAGAGAATACAGAAGAAGAAGTCGTTCACGTGAACGACG
ATAA
>g3552.t13 Gene=g3552 Length=333
MAEQQEEAYKKKQEELRAQYEKEQNLHENKLMLSKESKDKLALNFMYEPPPGIKKEREKE
ENEPEYKFEWQRKYNAPRESYCKGNEEIRDQPFGIQVRNVRCIKCHKYGHINTDKECSMF
SMSMSEARKFHSDQEQQQLLAKGGIELEEQLKEGMKEDGLALKRNALSLEQQQKHKIKQQ
LIPDEDEKNDVPEAEFIKGLSKKQKKELLKKLNLIEKKHKKKSDDSSSDESLKKRKKSSK
KKKRHYSSSSSSSDEKHYKKSSKKNNERNNNPIYVPIPVAVPIPVYDKYNRERKRSRERT
NRESYRERSREHKRKDRSRSREYRRRSRSRERR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g3552.t13 | Coils | Coil | Coil | 2 | 30 | - |
| 7 | g3552.t13 | Coils | Coil | Coil | 205 | 225 | - |
| 4 | g3552.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 212 | 333 | - |
| 5 | g3552.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 212 | 234 | - |
| 2 | g3552.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 247 | 266 | - |
| 3 | g3552.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 287 | 311 | - |
| 6 | g3552.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 312 | 333 | - |
| 1 | g3552.t13 | PANTHER | PTHR13151 | CBF1 INTERACTING COREPRESSOR CIR | 1 | 329 | 1.5E-53 |
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:0003714 | transcription corepressor activity | 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.
