General information for g36.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative T-cell leukemia homeobox protein 3.
Parent gene
- The parent gene g36 is located on chr_3: 371084..375158 (+ 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 | g36 | g36.t1 | TSS | g36.t1 | 370656 | 370656 |
| chr_3 | g36 | g36.t1 | isoform | g36.t1 | 371084 | 375158 |
| chr_3 | g36 | g36.t1 | exon | g36.t1.exon1 | 371084 | 371241 |
| chr_3 | g36 | g36.t1 | cds | g36.t1.CDS1 | 371084 | 371241 |
| chr_3 | g36 | g36.t1 | exon | g36.t1.exon2 | 372712 | 373055 |
| chr_3 | g36 | g36.t1 | cds | g36.t1.CDS2 | 372712 | 373055 |
| chr_3 | g36 | g36.t1 | exon | g36.t1.exon3 | 374863 | 375068 |
| chr_3 | g36 | g36.t1 | cds | g36.t1.CDS3 | 374863 | 375068 |
| chr_3 | g36 | g36.t1 | exon | g36.t1.exon4 | 375135 | 375158 |
| chr_3 | g36 | g36.t1 | cds | g36.t1.CDS4 | 375135 | 375158 |
| chr_3 | g36 | g36.t1 | TTS | g36.t1 | NA | NA |
Sequences
>g36.t1 Gene=g36 Length=732
ATGTCAACGCACGAAGACGATGACTTAGATCATGATCAGGAGATAAATGTAGATGATGTT
GATGATGCAGATTCAAGAATATCGTATGGAAGTAATGGATCAGAAATTGATTTAGATGGT
AATGGTAGCTGCTATGATGATTCAGAAACGGTCATTAGTGATCATCACATACAAAACGAT
CGAACGCGGCCAACGAGTGAGAATCTTCCATTTAGCATATCGCGGCTGCTATCAAAGTCA
AATAGTAGTGATAATATAAATAACAATAATAACAATAATGACAGAAAAAGTGCAGAACGA
GACTTGAGTGATTCAGAGAGTGGAAAATTAGCAATTGGTAGTGCAGGATTGCAATATACA
GGCGGTATTTACTCATATCCATTATATACATCAAGCGGTGTCCTTAGAGTTCCTCCTCAA
CGTGGTTATCCTCCACACGCTCTACATCCTGCATTTCCTTTACATCCGGCTGCGGCCTTA
GCTTTAAAAGATAGACTTGCTGCCTTCCCCATTGCACGACGCATTGGTCATCCCTATCAG
AATCGAACACCACCAAAACGAAAAAAGCCACGCACATCATTCACCCGCATTCAGGTTGCT
GAACTAGAAAAAAGATTTCATAAACAAAAATATCTTGCATCAGCTGAACGTGCGGCCCTA
GCGAGAGGTTTAAAAATGACAGACGCACAAGTGAAAACATGGTTTCAAAATCGAAGGACA
AAGTGGAGGTGA
>g36.t1 Gene=g36 Length=243
MSTHEDDDLDHDQEINVDDVDDADSRISYGSNGSEIDLDGNGSCYDDSETVISDHHIQND
RTRPTSENLPFSISRLLSKSNSSDNINNNNNNNDRKSAERDLSDSESGKLAIGSAGLQYT
GGIYSYPLYTSSGVLRVPPQRGYPPHALHPAFPLHPAAALALKDRLAAFPIARRIGHPYQ
NRTPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRT
KWR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g36.t1 | CDD | cd00086 | homeodomain | 188 | 243 | 3.96954E-21 |
| 10 | g36.t1 | Gene3D | G3DSA:1.10.10.60 | - | 171 | 243 | 5.0E-26 |
| 15 | g36.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 41 | - |
| 14 | g36.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 80 | 106 | - |
| 2 | g36.t1 | PANTHER | PTHR45921 | IP01054P | 25 | 108 | 4.3E-68 |
| 4 | g36.t1 | PANTHER | PTHR45921:SF6 | C15 | 25 | 108 | 4.3E-68 |
| 3 | g36.t1 | PANTHER | PTHR45921 | IP01054P | 131 | 243 | 4.3E-68 |
| 5 | g36.t1 | PANTHER | PTHR45921:SF6 | C15 | 131 | 243 | 4.3E-68 |
| 6 | g36.t1 | PRINTS | PR00024 | Homeobox signature | 209 | 220 | 3.3E-5 |
| 8 | g36.t1 | PRINTS | PR00024 | Homeobox signature | 224 | 234 | 3.3E-5 |
| 7 | g36.t1 | PRINTS | PR00024 | Homeobox signature | 234 | 243 | 3.3E-5 |
| 1 | g36.t1 | Pfam | PF00046 | Homeodomain | 188 | 243 | 5.6E-20 |
| 13 | g36.t1 | ProSitePatterns | PS00027 | ‘Homeobox’ domain signature. | 220 | 243 | - |
| 16 | g36.t1 | ProSiteProfiles | PS50071 | ‘Homeobox’ domain profile. | 185 | 243 | 19.856 |
| 12 | g36.t1 | SMART | SM00389 | HOX_1 | 187 | 243 | 5.2E-16 |
| 9 | g36.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 176 | 243 | 1.24E-21 |
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:0003677 | DNA binding | MF |
| GO:0000981 | DNA-binding transcription factor activity, RNA polymerase II-specific | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0003700 | DNA-binding transcription factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K15607 (T-cell leukemia homeobox 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. There were no conditions that were differentially expressed