General information for g3394.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Optomotor-blind protein.
Parent gene
- The parent gene g3394 is located on chr_3: 25133304..25133623 (- 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 | g3394 | g3394.t1 | isoform | g3394.t1 | 25121022 | 25133304 |
| chr_3 | g3394 | g3394.t1 | exon | g3394.t1.exon1 | 25121022 | 25121039 |
| chr_3 | g3394 | g3394.t1 | cds | g3394.t1.CDS1 | 25121022 | 25121039 |
| chr_3 | g3394 | g3394.t1 | exon | g3394.t1.exon2 | 25121102 | 25121255 |
| chr_3 | g3394 | g3394.t1 | cds | g3394.t1.CDS2 | 25121102 | 25121255 |
| chr_3 | g3394 | g3394.t1 | exon | g3394.t1.exon3 | 25121495 | 25121608 |
| chr_3 | g3394 | g3394.t1 | cds | g3394.t1.CDS3 | 25121495 | 25121608 |
| chr_3 | g3394 | g3394.t1 | exon | g3394.t1.exon4 | 25132670 | 25133304 |
| chr_3 | g3394 | g3394.t1 | cds | g3394.t1.CDS4 | 25132670 | 25133304 |
| chr_3 | g3394 | g3394.t1 | TSS | g3394.t1 | 25133691 | 25133691 |
| chr_3 | g3394 | g3394.t1 | TTS | g3394.t1 | NA | NA |
Sequences
>g3394.t1 Gene=g3394 Length=921
ATGAGATACGACGTTCAAGAGTTACTGCAAACAGACTCGGAAATCGGTCGGACAAATGGG
ATGGCCTATCATCCTTTCTTGCAACTACCAAGACAGACTGATTTCTCAGTCAGCTCTCTG
CTGACCGCGGGCATTACGCCAAGTTCTCAGTCGTCACAATCGAGTGGACAATTGTCGCCA
CAAACGCCAATTGCAAGTAGCAATAACAACAATAATAATAATAATAGCAACAGTAGCTCA
ACTCAGCAACAACAGCAGCAGACAGTCGTGCCTCAGCAGCCAGCGCCTGTTCATCCGCCA
CAGCCTTACTTTCCAGCCGCTGCGCTTGCCGCGTTAGCAACTAACGCACCTACAAGTGCA
CCACTCTATCCTGGTGCTTTTCTACCGAAATTACCTCCACATCATCCACACGCGCCACTT
GGAACTCCATATCATAATCATCCGTACACTGCCGAAGACGTTGTTCTGGCAGCAGCTGTC
GTAGCTCAACAACATCATCCTACAATGCGTCCTTTTCGTAATTATCCAGAGGATGATGGC
GTCGAAGATGATCCAAAAGTGACGCTCGAAGGCAAGGAATTATGGGAAAAGTTTCATAAG
CTGGGCACCGAGATGGTCATTACCAAAAGTGGACGACAAATGTTTCCACAAATGAAATTT
CGTGTATCAGGTTTAGACAATAAGTCGAAGTATATTTTACTACTAGATATTGTAGCAGCG
GATGACTATCGGTACAAATTTCACAACAGTCGATGGATGGTGGCAGGCAAAGCAGATCCA
GAAATGCCTAAAAGAATGTACATTCATCCTGACTCGCCATCGACAGGTGAACAATGGATG
CAGAAAGTTGTATCATTTCACAAACTCAAATTAACAAACAACATAAGTGATAAACATGGA
TTTATTTTGCCAATTACATAA
>g3394.t1 Gene=g3394 Length=306
MRYDVQELLQTDSEIGRTNGMAYHPFLQLPRQTDFSVSSLLTAGITPSSQSSQSSGQLSP
QTPIASSNNNNNNNNSNSSSTQQQQQQTVVPQQPAPVHPPQPYFPAAALAALATNAPTSA
PLYPGAFLPKLPPHHPHAPLGTPYHNHPYTAEDVVLAAAVVAQQHHPTMRPFRNYPEDDG
VEDDPKVTLEGKELWEKFHKLGTEMVITKSGRQMFPQMKFRVSGLDNKSKYILLLDIVAA
DDYRYKFHNSRWMVAGKADPEMPKRMYIHPDSPSTGEQWMQKVVSFHKLKLTNNISDKHG
FILPIT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g3394.t1 | Gene3D | G3DSA:2.60.40.820 | - | 181 | 305 | 3.2E-58 |
| 13 | g3394.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 74 | 95 | - |
| 14 | g3394.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 74 | 92 | - |
| 3 | g3394.t1 | PANTHER | PTHR11267:SF82 | T-BOX TRANSCRIPTION FACTOR TBX2 | 96 | 302 | 6.8E-83 |
| 4 | g3394.t1 | PANTHER | PTHR11267 | T-BOX PROTEIN-RELATED | 96 | 302 | 6.8E-83 |
| 6 | g3394.t1 | PRINTS | PR00937 | T-Box domain signature | 202 | 226 | 7.5E-23 |
| 5 | g3394.t1 | PRINTS | PR00937 | T-Box domain signature | 267 | 280 | 7.5E-23 |
| 7 | g3394.t1 | PRINTS | PR00937 | T-Box domain signature | 284 | 293 | 7.5E-23 |
| 2 | g3394.t1 | Pfam | PF11078 | Optomotor-blind protein N-terminal region | 98 | 173 | 1.9E-22 |
| 1 | g3394.t1 | Pfam | PF00907 | T-box | 187 | 302 | 3.0E-49 |
| 11 | g3394.t1 | ProSitePatterns | PS01283 | T-box domain signature 1. | 194 | 213 | - |
| 10 | g3394.t1 | ProSitePatterns | PS01264 | T-box domain signature 2. | 268 | 286 | - |
| 15 | g3394.t1 | ProSiteProfiles | PS50252 | T-box domain profile. | 189 | 306 | 48.095 |
| 12 | g3394.t1 | SMART | SM00425 | tbox5 | 184 | 306 | 4.0E-52 |
| 8 | g3394.t1 | SUPERFAMILY | SSF49417 | p53-like transcription factors | 185 | 302 | 1.74E-48 |
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:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0003700 | DNA-binding transcription factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K10177 (T-box protein 3)
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.
