General information for g5068.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5068 is located on chr_2: 6738164..6739596 (+ 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_2 | g5068 | g5068.t3 | TSS | g5068.t3 | 6737141 | 6737141 |
| chr_2 | g5068 | g5068.t3 | isoform | g5068.t3 | 6738164 | 6739259 |
| chr_2 | g5068 | g5068.t3 | exon | g5068.t3.exon1 | 6738164 | 6738844 |
| chr_2 | g5068 | g5068.t3 | cds | g5068.t3.CDS1 | 6738382 | 6738844 |
| chr_2 | g5068 | g5068.t3 | exon | g5068.t3.exon2 | 6738905 | 6739045 |
| chr_2 | g5068 | g5068.t3 | cds | g5068.t3.CDS2 | 6738905 | 6739045 |
| chr_2 | g5068 | g5068.t3 | exon | g5068.t3.exon3 | 6739117 | 6739259 |
| chr_2 | g5068 | g5068.t3 | cds | g5068.t3.CDS3 | 6739117 | 6739259 |
| chr_2 | g5068 | g5068.t3 | TTS | g5068.t3 | 6739575 | 6739575 |
Sequences
>g5068.t3 Gene=g5068 Length=965
AACTAATCCATCTCATAGCTAGACGGACAGATCTTCTCACACACCAACAGATATTTGTTG
CCATCACTTACATTTTACGTGATAAATCAAATCTCGGATATAATGACGTTGATCTTAACG
ATTTATACGACTACCTCACTTGGATAAAGCAGGAATATAAATACGATGATGTATCAACGC
ATCCCTGTATTTTAATTATTGATGAACTTCTCGATCATATGCCTTTCGAAATGATTAATA
CACAACAAGAATATACACGAGTGTGTTCATTTAGCAATTTAAAGAGATTATGGTCAAATC
ATCGTAACTCTATGGACAACAGTGGCAATATTATAACAACATTGAATAAATGTCAAGCCA
TAGTGAATCCAGATGGTTCTCTTCGAGAAATGGAAGATAGATTGAAAAATTTTTACAACT
ACTGGCTACCGTCATTTAAACTTTCTTGCAATTCACCTATTTCAAAAGAATCATTTCATG
AATATTTAACACAAAATGACGTACTAGTATACAGTGGGCATGGCTCTGGAATAAATTATT
CAATCACAAACATGTATCATTTAAAATCAAAAGCCATTGTGTTCCTTTTCGGTTGTGGAT
CAACTAGCCTTTTCTCAACTGGACTTAATAGTGAAATGAAAGGTGCACATATATATTATC
ACATTGGCAATGCGCCCACAGTGATTGGATTTTTATATACCGTGAGTGACTTTCCAACAG
ATCTCTGTACTACAAAAATTCTCAGTTCGTGGATAAGAACATCAGCAAAACCCCATTGGC
AATTAATAGACAGAACACAATGGAAAAAGAATGGAAATTTAGCTTTTACAAGAGTGTGTG
AAGTTTTTTCATCCGATAGTTTAACAGAAGTCATAACAAAAATGCATAGCGACACTGAGC
TTCCACTTTCATTAAGAGCATCATTAGTTTATCGTGGTTTACCAGTAGTAGCAAGCAGTA
AATAG
>g5068.t3 Gene=g5068 Length=248
MPFEMINTQQEYTRVCSFSNLKRLWSNHRNSMDNSGNIITTLNKCQAIVNPDGSLREMED
RLKNFYNYWLPSFKLSCNSPISKESFHEYLTQNDVLVYSGHGSGINYSITNMYHLKSKAI
VFLFGCGSTSLFSTGLNSEMKGAHIYYHIGNAPTVIGFLYTVSDFPTDLCTTKILSSWIR
TSAKPHWQLIDRTQWKKNGNLAFTRVCEVFSSDSLTEVITKMHSDTELPLSLRASLVYRG
LPVVASSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g5068.t3 | PANTHER | PTHR12792 | EXTRA SPINDLE POLES 1-RELATED | 9 | 245 | 0.000 |
| 1 | g5068.t3 | Pfam | PF03568 | Peptidase family C50 | 2 | 164 | 0.000 |
| 3 | g5068.t3 | ProSiteProfiles | PS51700 | SEPARIN core domain profile. | 42 | 137 | 17.875 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5068/g5068.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5068.t3.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005634 | nucleus | CC |
| GO:0006508 | proteolysis | BP |
| GO:0004197 | cysteine-type endopeptidase activity | 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.
