General information for g3608.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Exosome complex component RRP45.
Parent gene
- The parent gene g3608 is located on chr_3: 26732471..26734057 (+ 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 | g3608 | g3608.t5 | isoform | g3608.t5 | 26732471 | 26733730 |
| chr_3 | g3608 | g3608.t5 | exon | g3608.t5.exon1 | 26732471 | 26732948 |
| chr_3 | g3608 | g3608.t5 | cds | g3608.t5.CDS1 | 26732777 | 26732948 |
| chr_3 | g3608 | g3608.t5 | exon | g3608.t5.exon2 | 26733003 | 26733730 |
| chr_3 | g3608 | g3608.t5 | cds | g3608.t5.CDS2 | 26733003 | 26733730 |
| chr_3 | g3608 | g3608.t5 | TTS | g3608.t5 | 26733850 | 26733850 |
| chr_3 | g3608 | g3608.t5 | TSS | g3608.t5 | NA | NA |
Sequences
>g3608.t5 Gene=g3608 Length=1206
ATGAAAGAAACAATTTTATCAAATAATGAACGAGTGTTTGTTGAGAAGTCGATTGAAGAA
GTTTTAAGAATTGATAAACGTCAATTGACAGAATTTAGAAATTTAGGAATATTTTTTGGC
AAAAAATATGGAAGCGTGTTAGTTTCATTAGGTAAAGAAATGTTTTTATTACTTTAAATA
AATTATGAATTTAAATATACTTTCTTTTTATTAGGTGATACACGAGTTTTCGCAAATGTT
TCATGCGAAGTTAATATACCGAAAACCACTCGTCCAAATGAAGGAACAGTATTTATAAAT
GTTGAAATGTCAAATGAAAAAATGAGTGAATCTTGCATTGTTACTACAAGAATTCTTGAA
AGAACAATTCGTGATTCTAGATGTATTGATCTTGAATCATTATGTATAATTGCAGAAGAA
AAAGTTTGGAATCTAAGAGTTGATGTGTCTATTTTAAATAATGAAGGAAATGTTACAGAT
TGTGCGTGTATTGCAGCTGTGAGTGCTTTAGCTCATTTTAAAAGACCCGATTGCACAACT
TCAGGAGATGGTGAATTTATAATTCATAAGTCTTCTGAAAAAGACTTGATTCCTACTGTT
TTACACCACTATCCGATATGTATGACGTATGCTTTATTTAAAGGAAAAATTCCAATAGCA
GATCCAACATTATTAGAAGAACGAGTAACAAATGCTGGTCTAACTTTAGGTATCAATTCT
TATAAAGAGATTTGTTCTTTGCATATGACTGGTGTTTCTCTCACTAGTCCATTTCTCATC
CAAAAATGCTCGGAAATGGCTGCTGAACGAGCAAAACATGTTGTAGAATTTATTAAAAGT
ACACTTGAGCAAGATTCTATAGATCGCGAAAAATCTAATGTGAAAGGTTTTAAACAAAGT
ATCATTTTAACAAATGTTACTTCAAATTTTTGCGACGAGCAATCCATTGATAACAATGCA
GAAGAAATTTCAGAAGTCGCAAGTAATCATGATGAAATTATTGTTGTATCACAAGAGCAA
AAGTTCAAGAAAATTGATGAAAACACAATTTCAACAACAAAATGGAAGGACGAAAATGAA
GAAACGAGTAGTAGTGACAGTGAAATCATTACATTATCACAATCAAACCAAGAGAAATCT
AAAGTAGAAAGTATGCAAATCGATTCAAGTGATGATGAAGAGAAAGAAACTATTATATTA
AATTAA
>g3608.t5 Gene=g3608 Length=299
MSNEKMSESCIVTTRILERTIRDSRCIDLESLCIIAEEKVWNLRVDVSILNNEGNVTDCA
CIAAVSALAHFKRPDCTTSGDGEFIIHKSSEKDLIPTVLHHYPICMTYALFKGKIPIADP
TLLEERVTNAGLTLGINSYKEICSLHMTGVSLTSPFLIQKCSEMAAERAKHVVEFIKSTL
EQDSIDREKSNVKGFKQSIILTNVTSNFCDEQSIDNNAEEISEVASNHDEIIVVSQEQKF
KKIDENTISTTKWKDENEETSSSDSEIITLSQSNQEKSKVESMQIDSSDDEEKETIILN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g3608.t5 | Gene3D | G3DSA:3.30.230.70 | GHMP Kinase | 2 | 213 | 9.7E-56 |
| 7 | g3608.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 251 | 299 | - |
| 8 | g3608.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 263 | 281 | - |
| 9 | g3608.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 282 | 299 | - |
| 3 | g3608.t5 | PANTHER | PTHR11097:SF14 | EXOSOME COMPLEX COMPONENT RRP45 | 5 | 221 | 1.5E-64 |
| 4 | g3608.t5 | PANTHER | PTHR11097 | EXOSOME COMPLEX EXONUCLEASE RIBOSOMAL RNA PROCESSING PROTEIN | 5 | 221 | 1.5E-64 |
| 2 | g3608.t5 | Pfam | PF01138 | 3’ exoribonuclease family, domain 1 | 6 | 74 | 1.4E-8 |
| 1 | g3608.t5 | Pfam | PF03725 | 3’ exoribonuclease family, domain 2 | 101 | 166 | 5.6E-7 |
| 5 | g3608.t5 | SUPERFAMILY | SSF54211 | Ribosomal protein S5 domain 2-like | 4 | 126 | 5.06E-22 |
| 6 | g3608.t5 | SUPERFAMILY | SSF55666 | Ribonuclease PH domain 2-like | 99 | 196 | 2.57E-26 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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. There were no conditions that were differentially expressed