General information for g3608.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
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.t3 | isoform | g3608.t3 | 26732102 | 26734057 |
| chr_3 | g3608 | g3608.t3 | exon | g3608.t3.exon1 | 26732102 | 26734057 |
| chr_3 | g3608 | g3608.t3 | cds | g3608.t3.CDS1 | 26733146 | 26733730 |
| chr_3 | g3608 | g3608.t3 | TSS | g3608.t3 | NA | NA |
| chr_3 | g3608 | g3608.t3 | TTS | g3608.t3 | NA | NA |
Sequences
>g3608.t3 Gene=g3608 Length=1956
TGGTAATTTCAATGGTGTACAAAATTTCTTTTATTTGACATTTGATTTTGGTTGTTTTAC
GGTGCGACATTTCTCATCATTGCTAAGTAGACTGAAAAAAAATTTTACTCGTTTTTCAAG
TGATTTTCCCCTCGAATTTTATTATTGAACACGCGCTGAATTCAAATTTTTAATAAAAAT
CAAAATATTTTATTTTTATTTAATATTTTTCATGTAATTCCCAATTATTAAGACTACAAA
TAATTGTAACAATTTAAAAATTCAATCATTTGCTGTAATACAGGAATTGAAGCATTAATT
GTTTTCATTTATGAAAAACACATTGTTCCTGATAAGAAATATACACAAAAATATTTTTAT
AAATTTAATATGAAAGAAACAATTTTATCAAATAATGAACGAGTGTTTGTTGAGAAGTCG
ATTGAAGAAGTTTTAAGAATTGATAAACGTCAATTGACAGAATTTAGAAATTTAGGAATA
TTTTTTGGCAAAAAATATGGAAGCGTGTTAGTTTCATTAGGTAAAGAAATGTTTTTATTA
CTTTAAATAAATTATGAATTTAAATATACTTTCTTTTTATTAGGTGATACACGAGTTTTC
GCAAATGTTTCATGCGAAGTTAATATACCGAAAACCACTCGTCCAAATGAAGGAACAGTA
TTTATAAATGTTGAAATGTCAAATGAAAAAATGAGTGAATCTTGCATTGTTACTACAAGA
ATTCTTGAAAGAACAATTCGTGATTCTAGATGTATTGATCTTGAATCATTATGTATAATT
GCAGAAGAAAAAGTTTGGAATCTAAGAGTTGATGTGTCTATTTTAAATAATGAAGGAAAT
GTTACAGGTAAGATATTTGTTAAATAATTTTCTCATTTATAATATTTAAAAATTATTTTA
GATTGTGCGTGTATTGCAGCTGTGAGTGCTTTAGCTCATTTTAAAAGACCCGATTGCACA
ACTTCAGGAGATGGTGAATTTATAATTCATAAGTCTTCTGAAAAAGACTTGATTCCTACT
GTTTTACACCACTATCCGATATGTATGACGTATGCTTTATTTAAAGGAAAAATTCCAATA
GCAGATCCAACATTATTAGAAGAACGAGTAACAAATGCTGGTCTAACTTTAGGTATCAAT
TCTTATAAAGAGATTTGTTCTTTGCATATGACTGGTGTTTCTCTCACTAGTCCATTTCTC
ATCCAAAAATGCTCGGAAATGGCTGCTGAACGAGCAAAACATGTTGTAGAATTTATTAAA
AGTACACTTGAGCAAGATTCTATAGATCGCGAAAAATCTAATGTGAAAGGTTTTAAACAA
AGTATCATTTTAACAAATGTTACTTCAAATTTTTGCGACGAGCAATCCATTGATAACAAT
GCAGAAGAAATTTCAGAAGTCGCAAGTAATCATGATGAAATTATTGTTGTATCACAAGAG
CAAAAGTTCAAGAAAATTGATGAAAACACAATTTCAACAACAAAATGGAAGGACGAAAAT
GAAGAAACGAGTAGTAGTGACAGTGAAATCATTACATTATCACAATCAAACCAAGAGAAA
TCTAAAGTAGAAAGTATGCAAATCGATTCAAGTGATGATGAAGAGAAAGAAACTATTATA
TTAAATTAATACTCCAAAATTTATTGAATAGTTTATACTTTGAACTAAAATAATTTTTGT
ATGCTCATTCTTTATAAGTTTTGATGAAATGAATAAAATATGTAATAATTTCGTTTTCTG
ATGATACATCGATATGCTTGAAATGATTTTCGACTAATTTCACTAATTTAGGTTTGCTCA
TGTTTACATTTGCAGATAAGTCATAGAATCTTTTGTACTTTCGCAAAGTTTTTACCTATG
AATAATAAGTCGTAAGAAAACAGTAATGTTAATCAATAATATCGTGGTAATAAAGTATTT
AGAAGTAATAATATTAATCTTTTGTCTATACTTACT
>g3608.t3 Gene=g3608 Length=194
MTYALFKGKIPIADPTLLEERVTNAGLTLGINSYKEICSLHMTGVSLTSPFLIQKCSEMA
AERAKHVVEFIKSTLEQDSIDREKSNVKGFKQSIILTNVTSNFCDEQSIDNNAEEISEVA
SNHDEIIVVSQEQKFKKIDENTISTTKWKDENEETSSSDSEIITLSQSNQEKSKVESMQI
DSSDDEEKETIILN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g3608.t3 | Gene3D | G3DSA:3.30.230.70 | GHMP Kinase | 1 | 108 | 2.7E-17 |
| 5 | g3608.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 146 | 194 | - |
| 6 | g3608.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 158 | 176 | - |
| 7 | g3608.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 177 | 194 | - |
| 2 | g3608.t3 | PANTHER | PTHR11097:SF14 | EXOSOME COMPLEX COMPONENT RRP45 | 1 | 118 | 1.5E-15 |
| 3 | g3608.t3 | PANTHER | PTHR11097 | EXOSOME COMPLEX EXONUCLEASE RIBOSOMAL RNA PROCESSING PROTEIN | 1 | 118 | 1.5E-15 |
| 1 | g3608.t3 | Pfam | PF03725 | 3’ exoribonuclease family, domain 2 | 2 | 61 | 4.5E-5 |
| 4 | g3608.t3 | SUPERFAMILY | SSF55666 | Ribonuclease PH domain 2-like | 2 | 91 | 5.44E-22 |
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.
