General information for g13836.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein scalloped.
Parent gene
- The parent gene g13836 is located on chr_1: 32679393..32680620 (- 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_1 | g13836 | g13836.t3 | TTS | g13836.t3 | 32642302 | 32642302 |
| chr_1 | g13836 | g13836.t3 | isoform | g13836.t3 | 32642652 | 32679393 |
| chr_1 | g13836 | g13836.t3 | exon | g13836.t3.exon1 | 32642652 | 32642765 |
| chr_1 | g13836 | g13836.t3 | cds | g13836.t3.CDS1 | 32642652 | 32642765 |
| chr_1 | g13836 | g13836.t3 | exon | g13836.t3.exon2 | 32642836 | 32643070 |
| chr_1 | g13836 | g13836.t3 | cds | g13836.t3.CDS2 | 32642836 | 32643070 |
| chr_1 | g13836 | g13836.t3 | exon | g13836.t3.exon3 | 32643135 | 32643358 |
| chr_1 | g13836 | g13836.t3 | cds | g13836.t3.CDS3 | 32643135 | 32643358 |
| chr_1 | g13836 | g13836.t3 | exon | g13836.t3.exon4 | 32643428 | 32643643 |
| chr_1 | g13836 | g13836.t3 | cds | g13836.t3.CDS4 | 32643428 | 32643643 |
| chr_1 | g13836 | g13836.t3 | exon | g13836.t3.exon5 | 32646136 | 32646255 |
| chr_1 | g13836 | g13836.t3 | cds | g13836.t3.CDS5 | 32646136 | 32646255 |
| chr_1 | g13836 | g13836.t3 | exon | g13836.t3.exon6 | 32647245 | 32647375 |
| chr_1 | g13836 | g13836.t3 | cds | g13836.t3.CDS6 | 32647245 | 32647375 |
| chr_1 | g13836 | g13836.t3 | exon | g13836.t3.exon7 | 32666785 | 32666923 |
| chr_1 | g13836 | g13836.t3 | cds | g13836.t3.CDS7 | 32666785 | 32666923 |
| chr_1 | g13836 | g13836.t3 | exon | g13836.t3.exon8 | 32666984 | 32667108 |
| chr_1 | g13836 | g13836.t3 | cds | g13836.t3.CDS8 | 32666984 | 32667108 |
| chr_1 | g13836 | g13836.t3 | exon | g13836.t3.exon9 | 32679378 | 32679393 |
| chr_1 | g13836 | g13836.t3 | cds | g13836.t3.CDS9 | 32679378 | 32679393 |
| chr_1 | g13836 | g13836.t3 | TSS | g13836.t3 | NA | NA |
Sequences
>g13836.t3 Gene=g13836 Length=1320
ATGCTAATTTTTGGAGACGGCGGACTTGGAGCCGGCACAATAACGTCCAGGTGGCCTCCA
GTTGCTGGCCCAGGGCCAGAAAACGGCACCGGTGTGGATGGAAAACATCTTGATGTCGGC
GATATGAGTGATGTCAGTGATGACGAAAAGGACTTGTCGTCGGCAGATGCCGAAGGCGTT
TGGAGTCCTGACATCGAGCAAAGCTTCCAAGAAGCCCTCGCCATTTATCCACCATGTGGT
CGACGAAAAATTATACTATCAGAAGAGGGAAAGATGTATGGACGAAATGAGTTAATAGCG
CGCTACATTAAGCTCAGAACTGGTAAAACGAGAACGCGAAAGCAAGTCAGCTCACATATA
CAAGTCTTAGCTAGAAGAAAATTACGCGAATTTCAAGCAAAAATGAAGGTGGACCATTCA
ATGGGCAAAGAGAAAGCCTTTCAAACGATGAGCTCGATGACCTCTGCCCAATTAATATCA
GTTGCAGCGAAGGGACTCGCTTTAAATCCACAATGTATACCTCCTTATACTCAATTTTGG
CAACCGGGATTACAACCAAGCACCTCTCAAGATGTAAAACCATTCACACAACCCGCTTAT
CCTGGTGGCAAGACAGCAACAGCCGTAGCAATTGATGGAACCTTACAGACACAGCACTCC
GAAGGTAGAAGTATTGCTACACAAAAGTTCAGACTCGTCGAATTCTCTGCATATCTTGAT
CTAAATACCGATGAAACTGTAAGTGATTATCACAAGCATCTCTTTGTACATATAGCCGAT
CAGCCAACGCATCCACTCCTCGAGTCAGTCGACGTGAAAGAAATCTACGACAAATTTCCA
CAGAAAAGTGGTGGTTTAAAAGAGCTATATGAAAAAGGTCCGCAGAATGCCTTCTTCTTG
GTAAAATTCTGGGCCGATCTCAATACAAATATTCAAAACGATACTGGTGCATTTTATGGT
GTCAGCAGTCACTTCGAAAGTAGTGAGAATGTAGTCATCACATGTTCCACAAAAGTGTGT
TCCTTCGGCAAGCAGGTGGTTGAAAAAGTCGAAACGGAATATTCACGATTCGAAAATGGA
CGCTATGTGTATCGTATACATCGGTCGCCAATGTGCGATTATATGATAAATTTCATCAAT
AAACTTAAACGACTGCCCGAGAAATATATGATGAACAGTGTCTTAGAAAACTTTACCATT
CTTCAGGTAATATCAAATAAAGAGACACAAGAGACCCTATTGTGCATCGCGTTTGTATTT
GAAGTTTCAACATCTGAACATGGTGCACAACATCACATTTATAGATTGATAAAAGATTAG
>g13836.t3 Gene=g13836 Length=439
MLIFGDGGLGAGTITSRWPPVAGPGPENGTGVDGKHLDVGDMSDVSDDEKDLSSADAEGV
WSPDIEQSFQEALAIYPPCGRRKIILSEEGKMYGRNELIARYIKLRTGKTRTRKQVSSHI
QVLARRKLREFQAKMKVDHSMGKEKAFQTMSSMTSAQLISVAAKGLALNPQCIPPYTQFW
QPGLQPSTSQDVKPFTQPAYPGGKTATAVAIDGTLQTQHSEGRSIATQKFRLVEFSAYLD
LNTDETVSDYHKHLFVHIADQPTHPLLESVDVKEIYDKFPQKSGGLKELYEKGPQNAFFL
VKFWADLNTNIQNDTGAFYGVSSHFESSENVVITCSTKVCSFGKQVVEKVETEYSRFENG
RYVYRIHRSPMCDYMINFINKLKRLPEKYMMNSVLENFTILQVISNKETQETLLCIAFVF
EVSTSEHGAQHHIYRLIKD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g13836.t3 | Gene3D | G3DSA:1.10.10.1610 | - | 54 | 134 | 3.5E-39 |
| 8 | g13836.t3 | Gene3D | G3DSA:2.70.50.80 | - | 221 | 439 | 1.6E-111 |
| 3 | g13836.t3 | PANTHER | PTHR11834 | TRANSCRIPTIONAL ENHANCER FACTOR TEF RELATED | 38 | 439 | 1.8E-197 |
| 4 | g13836.t3 | PANTHER | PTHR11834:SF4 | TRANSCRIPTIONAL ENHANCER FACTOR TEF-1 | 38 | 439 | 1.8E-197 |
| 10 | g13836.t3 | PIRSF | PIRSF002603 | TEF | 6 | 439 | 4.5E-202 |
| 7 | g13836.t3 | PRINTS | PR00065 | TEA domain signature | 61 | 75 | 1.9E-22 |
| 6 | g13836.t3 | PRINTS | PR00065 | TEA domain signature | 94 | 108 | 1.9E-22 |
| 5 | g13836.t3 | PRINTS | PR00065 | TEA domain signature | 109 | 123 | 1.9E-22 |
| 1 | g13836.t3 | Pfam | PF01285 | TEA/ATTS domain | 58 | 123 | 1.0E-26 |
| 2 | g13836.t3 | Pfam | PF17725 | YAP binding domain | 229 | 436 | 5.0E-80 |
| 11 | g13836.t3 | ProSitePatterns | PS00554 | TEA domain signature. | 94 | 122 | - |
| 13 | g13836.t3 | ProSiteProfiles | PS51088 | TEA domain profile. | 54 | 130 | 30.006 |
| 12 | g13836.t3 | SMART | SM00426 | tea2 | 53 | 123 | 8.8E-51 |
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:0035329 | hippo signaling | BP |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0003700 | DNA-binding transcription factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K09448 (transcriptional enhancer factor)
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.
