General information for g1446.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein roadkill.
Parent gene
- The parent gene g1446 is located on chr_3: 11006450..11007632 (- 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 | g1446 | g1446.t2 | isoform | g1446.t2 | 11006450 | 11007115 |
| chr_3 | g1446 | g1446.t2 | exon | g1446.t2.exon1 | 11006450 | 11006576 |
| chr_3 | g1446 | g1446.t2 | cds | g1446.t2.CDS1 | 11006450 | 11006576 |
| chr_3 | g1446 | g1446.t2 | exon | g1446.t2.exon2 | 11006637 | 11007115 |
| chr_3 | g1446 | g1446.t2 | cds | g1446.t2.CDS2 | 11006637 | 11007055 |
| chr_3 | g1446 | g1446.t2 | TSS | g1446.t2 | NA | NA |
| chr_3 | g1446 | g1446.t2 | TTS | g1446.t2 | NA | NA |
Sequences
>g1446.t2 Gene=g1446 Length=606
GTAAAATTCTTTAAACCATGTCCAAAAGAAAAGGTCTTTCCACAAGGAGCAGTTTTTGAA
ATGAATAAAAAATATTTCAACTCATATTCATTCAGCGACATTCAAATTGTCTCGTCTGAT
GGAAAAGTGTTTCCTGCTCATCGCAATATTCTTGCTGGTCGTTCATCAGTTTTCAAAGCA
ATGCTCTTAACAGATATGATTGAAAAGAAACTCAACAAGATTGAAGTTGAAGATATTGAT
AGCGAAACAATGCTTGAACTTTTGAGATTCATTTATACAGAAGAAGCTCAAAATCTTTGC
GGTGTTGCTCATAAACTCATTTATGCAGCTGAGAAATATGACCTGCCAGATCTTAAATTA
ATTTGCGTATCTTACATGACAAACATGATATCACAAGAAAATATTTTTGAGACATTTGGA
ACTGCTATTCGATTCAATGAAGAAAAATTGTTAGATGAATGCATGGACTTCGTTGATTGG
TACTTTGGAAAATTACAATATCGAAATGAATGGAAGAAATTTGATATTGATTTGATGCTT
AAGATAATGACATATATTAAAGATTCTTGGAAAAATTTGACTGTGCTTACAACTTCTTCA
TTTTAA
>g1446.t2 Gene=g1446 Length=181
MNKKYFNSYSFSDIQIVSSDGKVFPAHRNILAGRSSVFKAMLLTDMIEKKLNKIEVEDID
SETMLELLRFIYTEEAQNLCGVAHKLIYAAEKYDLPDLKLICVSYMTNMISQENIFETFG
TAIRFNEEKLLDECMDFVDWYFGKLQYRNEWKKFDIDLMLKIMTYIKDSWKNLTVLTTSS
F
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g1446.t2 | CDD | cd14733 | BACK | 113 | 162 | 0.0008428 |
| 6 | g1446.t2 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 2 | 139 | 0.0000000 |
| 2 | g1446.t2 | PANTHER | PTHR24413:SF213 | FI01029P-RELATED | 3 | 153 | 0.0000000 |
| 3 | g1446.t2 | PANTHER | PTHR24413 | SPECKLE-TYPE POZ PROTEIN | 3 | 153 | 0.0000000 |
| 1 | g1446.t2 | Pfam | PF00651 | BTB/POZ domain | 3 | 108 | 0.0000000 |
| 7 | g1446.t2 | ProSiteProfiles | PS50097 | BTB domain profile. | 12 | 75 | 16.0520000 |
| 5 | g1446.t2 | SMART | SM00225 | BTB_4 | 12 | 110 | 0.0000000 |
| 4 | g1446.t2 | SUPERFAMILY | SSF54695 | POZ domain | 4 | 109 | 0.0000000 |
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