General information for g1493.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Speckle-type POZ protein-like.
Parent gene
- The parent gene g1493 is located on chr_3: 11377040..11378622 (+ 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 | g1493 | g1493.t1 | isoform | g1493.t1 | 11376105 | 11377040 |
| chr_3 | g1493 | g1493.t1 | exon | g1493.t1.exon1 | 11376105 | 11377040 |
| chr_3 | g1493 | g1493.t1 | cds | g1493.t1.CDS1 | 11376105 | 11377040 |
| chr_3 | g1493 | g1493.t1 | TSS | g1493.t1 | NA | NA |
| chr_3 | g1493 | g1493.t1 | TTS | g1493.t1 | NA | NA |
Sequences
>g1493.t1 Gene=g1493 Length=936
ATGCAAGAAAGTTTTGAAATTGAAATTCCATCATTTTCAACTGTAAGTGGATCAAAATAT
TTTAATGAATTTCACAATAAATTTGGTAAATGGACAACTGCAATTGTTTCAAGTGGACTT
TTCTTCTCTGGGAACATTTCACTTGAGCCACTTTTTGATGCAACTTTAGTTGACCTTAAG
AAAACAGAAATAACAGTGAATTACAGACCATCTGATAGATATGATGGATATTATCCTTCT
GTGATTGCAGAAAATTATTGTGGAACTTTATTTTGGTTTGGAGTTGCATTACAAAATGGT
AGTGGTTACAGAAATAGCCAAATGTTGATTAAAATAACAATGCCACAAGCTCAATATGAA
TTTAATAAAATTGCAAATCCAAAAAATGATAGCGTTGGGATAAAAATTCATTTGGAAAAA
TTATTTGAAACAGGAAATCATGCTGACATCACAATTCAGTCAAATGGAAAAGAATTTAAA
GTTCACAAGTTAATTTTGATGCGTTCTGAAGTTTTTGAGAAAATGTTGACTGGACCAACA
AAAGAAGCTCAAAGTGGAATAATTGTGATCAAAGATTTTGACTATGATGTGATTGCAGAA
ATGTGCAGATTTCTTTATTATGATGAAATTCCTAAAATTCAAACACTTGCTCTTCCTTTA
ATGATTGCTGCTGATAAATACATGATTGATGACTTGGCTAATAAATGTGAAAATTTTTTG
TTAAAAAATATAACAATTGAAAATTTTCATGATGTTTTGGTGATTGCTGATCAACTTGAT
AAAAATATTTTGCGTGAAGCTGCAATTGACTTTATTATTGAAAATTGCAAAATAATTTTT
AGTTCTGAAAATTGGAAAAATTTGAAGAAAAACAACATGGAACTTGCAATGCTAGTTACA
GAAAAGTTTATGATTTCAAATGCTTCAAAAGCTTAG
>g1493.t1 Gene=g1493 Length=311
MQESFEIEIPSFSTVSGSKYFNEFHNKFGKWTTAIVSSGLFFSGNISLEPLFDATLVDLK
KTEITVNYRPSDRYDGYYPSVIAENYCGTLFWFGVALQNGSGYRNSQMLIKITMPQAQYE
FNKIANPKNDSVGIKIHLEKLFETGNHADITIQSNGKEFKVHKLILMRSEVFEKMLTGPT
KEAQSGIIVIKDFDYDVIAEMCRFLYYDEIPKIQTLALPLMIAADKYMIDDLANKCENFL
LKNITIENFHDVLVIADQLDKNILREAAIDFIIENCKIIFSSENWKNLKKNNMELAMLVT
EKFMISNASKA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g1493.t1 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 123 | 238 | 0.000 |
| 6 | g1493.t1 | Gene3D | G3DSA:1.25.40.420 | - | 243 | 310 | 0.000 |
| 2 | g1493.t1 | PANTHER | PTHR24413:SF213 | FI01029P-RELATED | 14 | 303 | 0.000 |
| 3 | g1493.t1 | PANTHER | PTHR24413 | SPECKLE-TYPE POZ PROTEIN | 14 | 303 | 0.000 |
| 1 | g1493.t1 | Pfam | PF00651 | BTB/POZ domain | 138 | 243 | 0.000 |
| 8 | g1493.t1 | ProSiteProfiles | PS50097 | BTB domain profile. | 148 | 214 | 14.749 |
| 5 | g1493.t1 | SMART | SM00225 | BTB_4 | 148 | 244 | 0.000 |
| 4 | g1493.t1 | SUPERFAMILY | SSF54695 | POZ domain | 137 | 242 | 0.000 |
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:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K10523 (speckle-type POZ protein)
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