General information for g5068.t1
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.t1 | TSS | g5068.t1 | 6737141 | 6737141 |
| chr_2 | g5068 | g5068.t1 | isoform | g5068.t1 | 6737208 | 6739259 |
| chr_2 | g5068 | g5068.t1 | exon | g5068.t1.exon1 | 6737208 | 6737310 |
| chr_2 | g5068 | g5068.t1 | cds | g5068.t1.CDS1 | 6737208 | 6737310 |
| chr_2 | g5068 | g5068.t1 | exon | g5068.t1.exon2 | 6737402 | 6738844 |
| chr_2 | g5068 | g5068.t1 | cds | g5068.t1.CDS2 | 6737402 | 6738844 |
| chr_2 | g5068 | g5068.t1 | exon | g5068.t1.exon3 | 6738905 | 6739045 |
| chr_2 | g5068 | g5068.t1 | cds | g5068.t1.CDS3 | 6738905 | 6739045 |
| chr_2 | g5068 | g5068.t1 | exon | g5068.t1.exon4 | 6739117 | 6739259 |
| chr_2 | g5068 | g5068.t1 | cds | g5068.t1.CDS4 | 6739117 | 6739259 |
| chr_2 | g5068 | g5068.t1 | TTS | g5068.t1 | 6739575 | 6739575 |
Sequences
>g5068.t1 Gene=g5068 Length=1830
ATGCCGCGAAATCGAACTACTAGTGATTCTCATCAGCCAATTCTTCAGGATACAGATTGC
TATACAAGTGAAAGCACAATTATAAATATACCAGCAATAAAACAAATCTTTTTACAAAGA
GCTTGGGAGTTTATTCAACAGAGAAATGAAAAATATGCAATTTTTTATCAAACAATCAGT
TTTTGTCTCACGTCAACAACATCGCAACAACAACAATTTTGCGACAAAAATGAAAACAAT
GATGCGATTAGTAGCTATGTTGAGAAAATCATTAAGGAATTGAATTATGACAACAATAGC
AGCATAGATAATCCATCTTTATATTATTCAAACGAAGATATAAACAAATATCTCGAAAAA
GAAATATCCTCAACATGTCGCTCATCATTTCCCAAAGAATGGACCGTCATTCAACTCTCA
AAAAATTTCAATCCATATGTGCTCTCTAGTAAACATGAGGAAATAATGTGCTATAATACG
GGTATATCAATGACAATTTTCAAACACTCTGCCGTAAAAGACATGATGTTATTAGAAATA
AAGAAGCAATTACAATTAGAGAATCTTTTTGAAAAGTCATACAAACTTCCGAGAAAGATT
ACAGACTCAATTTCATTTACCAAATTTGCTAATATTGCATCAGAGAGTGAGAAACAAGAA
TATATGGAGAAATATGTGAGGGATAAAAAAGATATTGAAAACTATGTGCAAGAGGTGATA
AACTTGTTGACCTTATTTATTGGTCCATGGATATGCGTTTTAACAGGAAATTTTAAAAGT
AGAAAATCTATCGAAACTGAAAATGAGATACGTAAAAAGATTTATGAGTTTGTTAGCAAA
CGTAACTATACAGAGTATCAAGAAAAACTAATCCATCTCATAGCTAGACGGACAGATCTT
CTCACACACCAACAGATATTTGTTGCCATCACTTACATTTTACGTGATAAATCAAATCTC
GGATATAATGACGTTGATCTTAACGATTTATACGACTACCTCACTTGGATAAAGCAGGAA
TATAAATACGATGATGTATCAACGCATCCCTGTATTTTAATTATTGATGAACTTCTCGAT
CATATGCCTTTCGAAATGATTAATACACAACAAGAATATACACGAGTGTGTTCATTTAGC
AATTTAAAGAGATTATGGTCAAATCATCGTAACTCTATGGACAACAGTGGCAATATTATA
ACAACATTGAATAAATGTCAAGCCATAGTGAATCCAGATGGTTCTCTTCGAGAAATGGAA
GATAGATTGAAAAATTTTTACAACTACTGGCTACCGTCATTTAAACTTTCTTGCAATTCA
CCTATTTCAAAAGAATCATTTCATGAATATTTAACACAAAATGACGTACTAGTATACAGT
GGGCATGGCTCTGGAATAAATTATTCAATCACAAACATGTATCATTTAAAATCAAAAGCC
ATTGTGTTCCTTTTCGGTTGTGGATCAACTAGCCTTTTCTCAACTGGACTTAATAGTGAA
ATGAAAGGTGCACATATATATTATCACATTGGCAATGCGCCCACAGTGATTGGATTTTTA
TATACCGTGAGTGACTTTCCAACAGATCTCTGTACTACAAAAATTCTCAGTTCGTGGATA
AGAACATCAGCAAAACCCCATTGGCAATTAATAGACAGAACACAATGGAAAAAGAATGGA
AATTTAGCTTTTACAAGAGTGTGTGAAGTTTTTTCATCCGATAGTTTAACAGAAGTCATA
ACAAAAATGCATAGCGACACTGAGCTTCCACTTTCATTAAGAGCATCATTAGTTTATCGT
GGTTTACCAGTAGTAGCAAGCAGTAAATAG
>g5068.t1 Gene=g5068 Length=609
MPRNRTTSDSHQPILQDTDCYTSESTIINIPAIKQIFLQRAWEFIQQRNEKYAIFYQTIS
FCLTSTTSQQQQFCDKNENNDAISSYVEKIIKELNYDNNSSIDNPSLYYSNEDINKYLEK
EISSTCRSSFPKEWTVIQLSKNFNPYVLSSKHEEIMCYNTGISMTIFKHSAVKDMMLLEI
KKQLQLENLFEKSYKLPRKITDSISFTKFANIASESEKQEYMEKYVRDKKDIENYVQEVI
NLLTLFIGPWICVLTGNFKSRKSIETENEIRKKIYEFVSKRNYTEYQEKLIHLIARRTDL
LTHQQIFVAITYILRDKSNLGYNDVDLNDLYDYLTWIKQEYKYDDVSTHPCILIIDELLD
HMPFEMINTQQEYTRVCSFSNLKRLWSNHRNSMDNSGNIITTLNKCQAIVNPDGSLREME
DRLKNFYNYWLPSFKLSCNSPISKESFHEYLTQNDVLVYSGHGSGINYSITNMYHLKSKA
IVFLFGCGSTSLFSTGLNSEMKGAHIYYHIGNAPTVIGFLYTVSDFPTDLCTTKILSSWI
RTSAKPHWQLIDRTQWKKNGNLAFTRVCEVFSSDSLTEVITKMHSDTELPLSLRASLVYR
GLPVVASSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g5068.t1 | Pfam | PF03568 | Peptidase family C50 | 213 | 525 | 0.000 |
| g5068.t1 | ProSiteProfiles | PS51700 | SEPARIN core domain profile. | 403 | 498 | 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.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5068.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0006508 | proteolysis | BP |
| GO:0004197 | cysteine-type endopeptidase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K02365 (separase)
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.
