General information for g9996.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g9996 is located on chr_1: 6485181..6485634 (- 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_1 | g9996 | g9996.t2 | TTS | g9996.t2 | 6484545 | 6484545 |
| chr_1 | g9996 | g9996.t2 | isoform | g9996.t2 | 6485181 | 6485634 |
| chr_1 | g9996 | g9996.t2 | exon | g9996.t2.exon1 | 6485181 | 6485634 |
| chr_1 | g9996 | g9996.t2 | cds | g9996.t2.CDS1 | 6485182 | 6485634 |
| chr_1 | g9996 | g9996.t2 | TSS | g9996.t2 | 6485682 | 6485682 |
Sequences
>g9996.t2 Gene=g9996 Length=454
ATGCAAAATATATCGCATCAAGCAAGACCGACATTTGAAATTGATATAAATGATAAGATA
GTGTGCTACGAATCATCACAACCATTAATACATGGTGAAAGTGTTTTATTAATTGCATTA
AAAACGAGAATTTCTATTTTGGCGCTTGATATTGGGACGGAAGATTTCACTCTCGATTAT
AGAACAATTAAAGATATAGCTGAGCCAGATATAAGACTGCTTAAACTTTGTTCTCAAGCA
ATCGCAAGGAATATTTTGTTTGCAGCATGTCCTTCAAAGTACACAATTAAAATATTTTCT
GTTAATGAGAGTGAAGTTATATGTCTCAACAAAATTGCAGCTCATAGCAATTATATAAAT
TCAATAGATTTTTCTGAGGAATATTTAGCATCTGGGAGTGATGATCACACATGCAAAATC
TATTCTGTTAAAGAAAACTATTCCGAACATTCCG
>g9996.t2 Gene=g9996 Length=151
MQNISHQARPTFEIDINDKIVCYESSQPLIHGESVLLIALKTRISILALDIGTEDFTLDY
RTIKDIAEPDIRLLKLCSQAIARNILFAACPSKYTIKIFSVNESEVICLNKIAAHSNYIN
SIDFSEEYLASGSDDHTCKIYSVKENYSEHS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g9996.t2 | Gene3D | G3DSA:2.130.10.10 | - | 9 | 150 | 0.0000000 |
| 4 | g9996.t2 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 112 | 151 | 9.8890000 |
| 5 | g9996.t2 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 112 | 151 | 10.1740000 |
| 2 | g9996.t2 | SMART | SM00320 | WD40_4 | 105 | 142 | 0.0000091 |
| 1 | g9996.t2 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 71 | 146 | 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 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.
