General information for g3392.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 g3392 is located on chr_3: 25083942..25091228 (- 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 | g3392 | g3392.t1 | TTS | g3392.t1 | 25083735 | 25083735 |
| chr_3 | g3392 | g3392.t1 | isoform | g3392.t1 | 25083942 | 25091228 |
| chr_3 | g3392 | g3392.t1 | exon | g3392.t1.exon1 | 25083942 | 25084861 |
| chr_3 | g3392 | g3392.t1 | cds | g3392.t1.CDS1 | 25083942 | 25084861 |
| chr_3 | g3392 | g3392.t1 | exon | g3392.t1.exon2 | 25084951 | 25085171 |
| chr_3 | g3392 | g3392.t1 | cds | g3392.t1.CDS2 | 25084951 | 25085171 |
| chr_3 | g3392 | g3392.t1 | exon | g3392.t1.exon3 | 25089612 | 25089635 |
| chr_3 | g3392 | g3392.t1 | cds | g3392.t1.CDS3 | 25089612 | 25089635 |
| chr_3 | g3392 | g3392.t1 | exon | g3392.t1.exon4 | 25090963 | 25091039 |
| chr_3 | g3392 | g3392.t1 | cds | g3392.t1.CDS4 | 25090963 | 25091039 |
| chr_3 | g3392 | g3392.t1 | exon | g3392.t1.exon5 | 25091097 | 25091228 |
| chr_3 | g3392 | g3392.t1 | cds | g3392.t1.CDS5 | 25091097 | 25091228 |
| chr_3 | g3392 | g3392.t1 | TSS | g3392.t1 | NA | NA |
Sequences
>g3392.t1 Gene=g3392 Length=1374
ATGCACAAATATCAACCTAGATTTCATCTAGTCCGAACCACCGATATCCTCAAATTGCCG
TATTCAACATTTCGAACGTATGTCTTTAAGGAAACTGAATTCATAGCTGTGACTGCATAT
CAAAATGAGAAGATTACACAATTAAAAATTGATAACAATCCTTTTGCAAAGGGTTTTCGT
GATACTGGTGCTGGAAAGCGGGAGAAAAATTCGATTCCTGTCAATTCACATAGCCGACAA
ACTCTTATGTCATCACAACGTTCGGATGGTGATAAATTAAATCCGAGTCAGACATATAGC
TCAACACGGGGACCATTTCATGACGCTCGACACCATCATCATTTGAGTCAGCATCACAAT
CATATAGATGACGATGATAAGCTTCTCGATGTAGTCGGACCGCCGCAGAGCCCATTATTG
TCGTCATTGCAACAAATGCAATCACATGCCCATGGATGGTTCAATCATTTTGCGAATGAA
GCGCACATGGAAGATGTCAGACGGCGACTGCAGGGTGCCGATGACAACGAGAAGGATGGA
AGTGATTCCAATTGCTCTGACAACGTGAGTGCCGGTGCTTTTCGACCGACTAGCTCGGGT
AGTCCCAAAGAAGGATCAAAGAATAGTTCATATCCGTCGCCGAATATCTCTGTAGGTCCG
CCTATTCAACCGCCACCACATCTCTTGCCTTATCTTTATCCTCATGGAATTTATAACCCC
GTGGCGCCACCACTATCGTTACTTCATAATCCCGCAATGAATCCAGGTCTTTTCCTTAAT
GCTCAATTAGCATTGGCTGCTCAACATCCAGCATTATTTGGTCATTATTCAGGACATGCT
CCATCATCACCGCTACACAACCTCAAATCACATCGATTTTCGCCATATAGCTTACCAGGA
TTACATCAAGGCTCTGCTTTCGATGCTGTCACACCAGGACAGTCGAGTGCTAATAATAAT
AATAATGCTGCTCCATTAGAGCGTAGAAGCCTCAGTAGTAGCCCACCCGTATCACATAAT
CTCAATGTCAACTCAGACTCGCCATCATCAAATAACCGCGCACATTCGATATCGCCCACG
CCGCGCCCCTTGTCACAGCAATCCTCGTCAACATTTACGCCACAGGCTGCGAGTAACAAC
AACAACAATAGCAATGAGCGAAGCAAGAATGGCAACAGCAATGGAATAAGTAGCAACAAT
AATAGTACAATTGACAAGAACTCAACGACAGCCTCAGAATTGAAGAATATGGAAAAGATG
GTGAATGGTTTAGACATGCATCAGAATGGCACAATACCGACATCAGCGTCATCAGGCTCA
TTGCGTTCAATATCGCCTGATGACTCGAAAAAAATCATCAACCTTGATCAGTGA
>g3392.t1 Gene=g3392 Length=457
MHKYQPRFHLVRTTDILKLPYSTFRTYVFKETEFIAVTAYQNEKITQLKIDNNPFAKGFR
DTGAGKREKNSIPVNSHSRQTLMSSQRSDGDKLNPSQTYSSTRGPFHDARHHHHLSQHHN
HIDDDDKLLDVVGPPQSPLLSSLQQMQSHAHGWFNHFANEAHMEDVRRRLQGADDNEKDG
SDSNCSDNVSAGAFRPTSSGSPKEGSKNSSYPSPNISVGPPIQPPPHLLPYLYPHGIYNP
VAPPLSLLHNPAMNPGLFLNAQLALAAQHPALFGHYSGHAPSSPLHNLKSHRFSPYSLPG
LHQGSAFDAVTPGQSSANNNNNAAPLERRSLSSSPPVSHNLNVNSDSPSSNNRAHSISPT
PRPLSQQSSSTFTPQAASNNNNNSNERSKNGNSNGISSNNNSTIDKNSTTASELKNMEKM
VNGLDMHQNGTIPTSASSGSLRSISPDDSKKIINLDQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3392.t1 | Gene3D | G3DSA:2.60.40.820 | - | 1 | 67 | 4.5E-30 |
| 9 | g3392.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 62 | 104 | - |
| 15 | g3392.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 69 | 104 | - |
| 13 | g3392.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 173 | 213 | - |
| 12 | g3392.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 183 | 213 | - |
| 11 | g3392.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 323 | 410 | - |
| 10 | g3392.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 430 | 457 | - |
| 14 | g3392.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 430 | 447 | - |
| 2 | g3392.t1 | PANTHER | PTHR11267:SF107 | OPTOMOTOR-BLIND PROTEIN | 1 | 275 | 4.3E-46 |
| 3 | g3392.t1 | PANTHER | PTHR11267 | T-BOX PROTEIN-RELATED | 1 | 275 | 4.3E-46 |
| 4 | g3392.t1 | PRINTS | PR00937 | T-Box domain signature | 32 | 45 | 6.6E-8 |
| 5 | g3392.t1 | PRINTS | PR00937 | T-Box domain signature | 53 | 61 | 6.6E-8 |
| 1 | g3392.t1 | Pfam | PF00907 | T-box | 1 | 61 | 5.9E-25 |
| 16 | g3392.t1 | ProSiteProfiles | PS50252 | T-box domain profile. | 1 | 61 | 28.06 |
| 8 | g3392.t1 | SMART | SM00425 | tbox5 | 1 | 66 | 0.0023 |
| 6 | g3392.t1 | SUPERFAMILY | SSF49417 | p53-like transcription factors | 1 | 61 | 2.61E-20 |
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 K10176 (T-box protein 2)
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.
