General information for g938.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 g938 is located on chr_3: 6978751..6980792 (- 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 | g938 | g938.t2 | TTS | g938.t2 | 6978505 | 6978505 |
| chr_3 | g938 | g938.t2 | isoform | g938.t2 | 6978587 | 6979211 |
| chr_3 | g938 | g938.t2 | exon | g938.t2.exon1 | 6978587 | 6978692 |
| chr_3 | g938 | g938.t2 | cds | g938.t2.CDS1 | 6978587 | 6978692 |
| chr_3 | g938 | g938.t2 | exon | g938.t2.exon2 | 6978751 | 6979211 |
| chr_3 | g938 | g938.t2 | cds | g938.t2.CDS2 | 6978751 | 6979211 |
| chr_3 | g938 | g938.t2 | TSS | g938.t2 | NA | NA |
Sequences
>g938.t2 Gene=g938 Length=567
ATGCCAGAAATTTCAATTATTGAAGACAAACGATTTGGAACAAAAAATCATTTGAAATCT
TTATTTGATTCTGGAAAAGATTCTGATATCACAATCAAAGCAGAAGAAAAAGAAATCAAA
GTTCATAAGCTTATTTTGAAACGATCGGAAGTTTTTGCAAAAATGTTGAATGGTACATCA
AAAGAGACTCAAAGTAAAATCATAGAAATTAAGGATATCAAATATGAAGTGATCGTTGAA
ATGTGCCGATTTTTGTATTATGATGAAATTCCAAAAATTGATTCACTTGCTCTTCCTTTA
TTAATTGCTGCTGATAAATATATGATCAATGATTTAGCTAACAAATGTGAAAAATTTTTG
ATGTTAAACATAACTATTGGGAATTTTCATGAAGTCTTGGTAACTGCTGATCAACTAAAT
AAAAATAAATTGCGTGAAGCCACAATTGATTACATCATTGCAAACCGTAAATCGATTTTC
CCATCTGTAACATGGAAAACTTTAAAGACAAATCACATGCAACTTGCTATGCTTGTCATG
GAAAAATTTATGTTAAAAGATGCTTAA
>g938.t2 Gene=g938 Length=188
MPEISIIEDKRFGTKNHLKSLFDSGKDSDITIKAEEKEIKVHKLILKRSEVFAKMLNGTS
KETQSKIIEIKDIKYEVIVEMCRFLYYDEIPKIDSLALPLLIAADKYMINDLANKCEKFL
MLNITIGNFHEVLVTADQLNKNKLREATIDYIIANRKSIFPSVTWKTLKTNHMQLAMLVM
EKFMLKDA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g938.t2 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 6 | 118 | 0.000 |
| 6 | g938.t2 | Gene3D | G3DSA:1.25.40.420 | - | 123 | 187 | 0.000 |
| 2 | g938.t2 | PANTHER | PTHR24413:SF213 | FI01029P-RELATED | 13 | 182 | 0.000 |
| 3 | g938.t2 | PANTHER | PTHR24413 | SPECKLE-TYPE POZ PROTEIN | 13 | 182 | 0.000 |
| 1 | g938.t2 | Pfam | PF00651 | BTB/POZ domain | 18 | 120 | 0.000 |
| 8 | g938.t2 | ProSiteProfiles | PS50097 | BTB domain profile. | 28 | 94 | 13.612 |
| 5 | g938.t2 | SMART | SM00225 | BTB_4 | 28 | 124 | 0.000 |
| 4 | g938.t2 | SUPERFAMILY | SSF54695 | POZ domain | 15 | 121 | 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 gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
