General information for g3765.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein groucho.
Parent gene
- The parent gene g3765 is located on chr_3: 27911436..27912026 (+ 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 | g3765 | g3765.t1 | TSS | g3765.t1 | 27908546 | 27908546 |
| chr_3 | g3765 | g3765.t1 | isoform | g3765.t1 | 27909127 | 27912026 |
| chr_3 | g3765 | g3765.t1 | exon | g3765.t1.exon1 | 27909127 | 27909168 |
| chr_3 | g3765 | g3765.t1 | cds | g3765.t1.CDS1 | 27909127 | 27909168 |
| chr_3 | g3765 | g3765.t1 | exon | g3765.t1.exon2 | 27909237 | 27909398 |
| chr_3 | g3765 | g3765.t1 | cds | g3765.t1.CDS2 | 27909237 | 27909398 |
| chr_3 | g3765 | g3765.t1 | exon | g3765.t1.exon3 | 27909460 | 27909504 |
| chr_3 | g3765 | g3765.t1 | cds | g3765.t1.CDS3 | 27909460 | 27909504 |
| chr_3 | g3765 | g3765.t1 | exon | g3765.t1.exon4 | 27909577 | 27909714 |
| chr_3 | g3765 | g3765.t1 | cds | g3765.t1.CDS4 | 27909577 | 27909714 |
| chr_3 | g3765 | g3765.t1 | exon | g3765.t1.exon5 | 27909776 | 27910024 |
| chr_3 | g3765 | g3765.t1 | cds | g3765.t1.CDS5 | 27909776 | 27910024 |
| chr_3 | g3765 | g3765.t1 | exon | g3765.t1.exon6 | 27910084 | 27910694 |
| chr_3 | g3765 | g3765.t1 | cds | g3765.t1.CDS6 | 27910084 | 27910694 |
| chr_3 | g3765 | g3765.t1 | exon | g3765.t1.exon7 | 27910762 | 27911011 |
| chr_3 | g3765 | g3765.t1 | cds | g3765.t1.CDS7 | 27910762 | 27911011 |
| chr_3 | g3765 | g3765.t1 | exon | g3765.t1.exon8 | 27911108 | 27911358 |
| chr_3 | g3765 | g3765.t1 | cds | g3765.t1.CDS8 | 27911108 | 27911358 |
| chr_3 | g3765 | g3765.t1 | exon | g3765.t1.exon9 | 27911425 | 27911597 |
| chr_3 | g3765 | g3765.t1 | cds | g3765.t1.CDS9 | 27911425 | 27911597 |
| chr_3 | g3765 | g3765.t1 | exon | g3765.t1.exon10 | 27911658 | 27911857 |
| chr_3 | g3765 | g3765.t1 | cds | g3765.t1.CDS10 | 27911658 | 27911857 |
| chr_3 | g3765 | g3765.t1 | exon | g3765.t1.exon11 | 27911919 | 27912026 |
| chr_3 | g3765 | g3765.t1 | cds | g3765.t1.CDS11 | 27911919 | 27912026 |
| chr_3 | g3765 | g3765.t1 | TTS | g3765.t1 | NA | NA |
Sequences
>g3765.t1 Gene=g3765 Length=2229
ATGTACTCAAACGCAGCAGCAGCTTCAGTTCCGAGGCATCAGGGCCCTCAATCGTCAACA
CAGCCGTTTAAATTTACAGTTACAGAAAATTGTGAACGAATAAAGGAGGAGTTTAATTTC
TTACAATCACAGTATCACAATTTAAAATTAGAATGCGAGAAGTTAGCTCAAGAGAAGACA
GAAATGCAACGACATTATGTAATGTATTATGAAATGTCTTATGGATTAAATGTGGAAATG
CATAAGCAAACGGAAATTTCAAAAAGATTAACTGCTTTAATAAATCAATTGGTGCCATTT
CTCTCACAAGAACATCAGCAACAAGTCTTATCAGCAGTTGAGCGTGCTAAGCAAATTACA
ATGTCAGAATTAAATGCTGTGATAGGGCAACAACGCGATTTACCGAGAATACTCCAACAA
ATGCATGCTCAACCAATACCAGGAGGTGGTGCATTACCAATTCCACTTCATCCCTCTGCT
GCTTCTTTAAATAATGTGCCTGTTCCAATTCAAGGTGGTGGTGGAGCGGCAGCTGCTTTG
CTTAAAAATCAAGAACTTATGATGCATAGTCGTTCAGAAGATAACAAAGTTGGTGGTGGT
GGTCCAAATGAAGATAACAGTTTACATGCACGGAGTATGAATTCAATATCTCCTGCACGT
TCAGATATAATCACTACTCAGGAAATTAAGAAAATAAAGAAGGAAGAAAAGGAAATTGGT
CATCAATCAGATGGTGAAAAATCTGATCAAGATTTGGTCGTTGATGATGCATGCTCTGAA
GATATAAATTTATCGAGCCCTGTAACTGCCTCATCTCAATCACATCCTCCACATAATGGA
ACTCCAATATCGCCGCGTGAGAACGGTATTTTGATTAAGAAAGCAGAACATTTGAATGAA
AGAAATCTTGCGCCGAATTCACCAAGATCTAATTCATCAGATCGTGGTTCATCATCAAAT
GGTTCTACAACTCCATCAAATACGAAACTTAAGTTAGAAGATAAGCCATTAACTCCTGGA
ATAAATGGCAATGGAGGAATTCCAAAATCGGTGGTGTCTAAAGCACCATCAGCCTATCCA
CCAAATTATATTAATCCAATGAATGGTAGTCCTCATGATCTTCAAGCAGCAGCAGCTTTT
GCTGCAGTTCTTCCACCTGGACATCCCGGCTATCGTGGACTACCAATGGGTTTTGATTCA
CAAATGCGAGCGCCTTCACTCGGTGGTCCAAATCTCACTGGAAAACCAGCTTATTCCTTC
CATGTAAATGCAGAAGGACATCTTCAACCCGTTCCCTTTCCACCAGATGCTTTAATTGGA
AGTGGAATTCCAAGAGGAGCTCGACAAATCAACACGTTAAATCATGGTGAAGTTGTGTGC
GCTGTAACAATTTCAAATCCAACAAAATATGTCTATACTGGTGGTAAAGGATGTGTAAAA
GTATGGGATATTTCTCAGCCATCAAATAAAAATCCCGTTAGCCAACTTGATTGCTTGCAA
CGAGATAATTATATTCGATCTGTTAAATTGCTACCAGATGGACGCACTCTTATTGTTGGT
GGTGAAGCGTCTAATTTGAGTATTTGGGATTTAGCGAGTCCAACTCCACGTGTTAAAGCA
GAATTAACTTCAAATGCACCTGCATGCTATGCTTTAGCTATCTCACCTGATTCTAAGATC
TGCTTTTCATGCTGTAGCGATGGTAATATTGCAGTATGGGATTTACAAAGTAACACTTTA
GTTCGACAATTTCAAGGACATACTGATGGTGCATCATGTATTGACATTTGTTCAGATGGT
ACGAAACTATGGACTGGTGGTTTAGATAATACAGTAAGATCATGGGATCTTCGTGAAGGA
AGACAACTGCAACAGCATGATTTTTCATCTCAAATCTTTTCATTGGGTTATTGTCCAACT
GGTGATTGGCTTGCAGTCGGGATGGAAAATTCAAATGTCGAAGTATTGCATGCTCAAAAG
TCTGAAAAGTATCAGCTTCATTTACATGAAAGTTGTGTTCTGAGTCTTAAATTTGCTGCT
TGCGGCAAATGGTTCGTTTCGACTGGTAAAGATAATCTTTTGAATGCTTGGAAAACTCCT
TATGGCGCAAGTATCTTTCAGTCTAAAGAAACGTCATCAGTATTGAGTTGTGATATATCA
GCTGATGATAAATATATTGTTACTGGATCTGGTGACAAAAAGGCCTCAGTTTATGAAGTC
ATATACTAA
>g3765.t1 Gene=g3765 Length=742
MYSNAAAASVPRHQGPQSSTQPFKFTVTENCERIKEEFNFLQSQYHNLKLECEKLAQEKT
EMQRHYVMYYEMSYGLNVEMHKQTEISKRLTALINQLVPFLSQEHQQQVLSAVERAKQIT
MSELNAVIGQQRDLPRILQQMHAQPIPGGGALPIPLHPSAASLNNVPVPIQGGGGAAAAL
LKNQELMMHSRSEDNKVGGGGPNEDNSLHARSMNSISPARSDIITTQEIKKIKKEEKEIG
HQSDGEKSDQDLVVDDACSEDINLSSPVTASSQSHPPHNGTPISPRENGILIKKAEHLNE
RNLAPNSPRSNSSDRGSSSNGSTTPSNTKLKLEDKPLTPGINGNGGIPKSVVSKAPSAYP
PNYINPMNGSPHDLQAAAAFAAVLPPGHPGYRGLPMGFDSQMRAPSLGGPNLTGKPAYSF
HVNAEGHLQPVPFPPDALIGSGIPRGARQINTLNHGEVVCAVTISNPTKYVYTGGKGCVK
VWDISQPSNKNPVSQLDCLQRDNYIRSVKLLPDGRTLIVGGEASNLSIWDLASPTPRVKA
ELTSNAPACYALAISPDSKICFSCCSDGNIAVWDLQSNTLVRQFQGHTDGASCIDICSDG
TKLWTGGLDNTVRSWDLREGRQLQQHDFSSQIFSLGYCPTGDWLAVGMENSNVEVLHAQK
SEKYQLHLHESCVLSLKFAACGKWFVSTGKDNLLNAWKTPYGASIFQSKETSSVLSCDIS
ADDKYIVTGSGDKKASVYEVIY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g3765.t1 | CDD | cd00200 | WD40 | 455 | 739 | 5.81817E-43 |
| 14 | g3765.t1 | Coils | Coil | Coil | 31 | 65 | - |
| 13 | g3765.t1 | Gene3D | G3DSA:2.130.10.10 | - | 410 | 742 | 2.1E-143 |
| 26 | g3765.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - |
| 27 | g3765.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 266 | 285 | - |
| 28 | g3765.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 266 | 281 | - |
| 25 | g3765.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 299 | 348 | - |
| 29 | g3765.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 303 | 331 | - |
| 5 | g3765.t1 | PANTHER | PTHR10814:SF4 | TRANSDUCIN-LIKE ENHANCER PROTEIN 2 | 12 | 742 | 5.7E-296 |
| 6 | g3765.t1 | PANTHER | PTHR10814 | TRANSDUCIN-LIKE ENHANCER PROTEIN | 12 | 742 | 5.7E-296 |
| 8 | g3765.t1 | PRINTS | PR01850 | Groucho/transducin-like enhancer protein signature | 641 | 663 | 7.4E-55 |
| 10 | g3765.t1 | PRINTS | PR01850 | Groucho/transducin-like enhancer protein signature | 664 | 682 | 7.4E-55 |
| 11 | g3765.t1 | PRINTS | PR01850 | Groucho/transducin-like enhancer protein signature | 683 | 702 | 7.4E-55 |
| 9 | g3765.t1 | PRINTS | PR01850 | Groucho/transducin-like enhancer protein signature | 703 | 722 | 7.4E-55 |
| 7 | g3765.t1 | PRINTS | PR01850 | Groucho/transducin-like enhancer protein signature | 723 | 742 | 7.4E-55 |
| 1 | g3765.t1 | Pfam | PF03920 | Groucho/TLE N-terminal Q-rich domain | 13 | 132 | 2.9E-65 |
| 2 | g3765.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 454 | 483 | 0.16 |
| 4 | g3765.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 550 | 574 | 0.1 |
| 3 | g3765.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 580 | 616 | 0.059 |
| 23 | g3765.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 561 | 575 | - |
| 24 | g3765.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 603 | 617 | - |
| 30 | g3765.t1 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 452 | 625 | 26.63 |
| 33 | g3765.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 542 | 583 | 10.609 |
| 32 | g3765.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 584 | 625 | 13.783 |
| 31 | g3765.t1 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 666 | 742 | 9.467 |
| 34 | g3765.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 666 | 707 | 8.737 |
| 18 | g3765.t1 | SMART | SM00320 | WD40_4 | 446 | 483 | 0.057 |
| 21 | g3765.t1 | SMART | SM00320 | WD40_4 | 492 | 530 | 0.14 |
| 20 | g3765.t1 | SMART | SM00320 | WD40_4 | 535 | 574 | 5.6E-5 |
| 17 | g3765.t1 | SMART | SM00320 | WD40_4 | 577 | 616 | 3.8E-8 |
| 19 | g3765.t1 | SMART | SM00320 | WD40_4 | 619 | 657 | 49.0 |
| 16 | g3765.t1 | SMART | SM00320 | WD40_4 | 659 | 698 | 0.0079 |
| 22 | g3765.t1 | SMART | SM00320 | WD40_4 | 699 | 739 | 0.23 |
| 12 | g3765.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 433 | 740 | 1.14E-64 |
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:0005634 | nucleus | CC |
| GO:0005515 | protein binding | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K04497 (groucho)
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.
