General information for g10183.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Poly(A) polymerase gamma.
Parent gene
- The parent gene g10183 is located on chr_1: 8142779..8143970 (- 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 | g10183 | g10183.t2 | TTS | g10183.t2 | 8140094 | 8140094 |
| chr_1 | g10183 | g10183.t2 | isoform | g10183.t2 | 8140754 | 8142216 |
| chr_1 | g10183 | g10183.t2 | exon | g10183.t2.exon1 | 8140754 | 8141061 |
| chr_1 | g10183 | g10183.t2 | exon | g10183.t2.exon2 | 8141204 | 8141361 |
| chr_1 | g10183 | g10183.t2 | cds | g10183.t2.CDS1 | 8141272 | 8141361 |
| chr_1 | g10183 | g10183.t2 | exon | g10183.t2.exon3 | 8141567 | 8141791 |
| chr_1 | g10183 | g10183.t2 | cds | g10183.t2.CDS2 | 8141567 | 8141791 |
| chr_1 | g10183 | g10183.t2 | exon | g10183.t2.exon4 | 8141849 | 8142216 |
| chr_1 | g10183 | g10183.t2 | cds | g10183.t2.CDS3 | 8141849 | 8141947 |
| chr_1 | g10183 | g10183.t2 | TSS | g10183.t2 | NA | NA |
Sequences
>g10183.t2 Gene=g10183 Length=1059
AATGGTGTGGTTTAATTGAGTCAAAAATTCGTATTCTCATTGGAAATTTGGAACGAAATC
AGCATATTAATCTTGCCCATGTTAATCCAAAATGTTTCGAAAAATCTACAGGTAGTGCAA
AAGAAAAAGGAACAACTGCAGTAAATAAACAGCCTACTGCAGTCATTAGTGAAAAAAATG
AAAATGAAAGTGAAAAAAATACAGAAAAGCTTGAAACGACAACGAGTGATAATAATGAAG
AGTCACAAAATGAATCTGAATATTGTTCAATGTGGTTCATAGGACTTGAATTTGAACGAT
CTGCTAATCTTAACGTTGACCTTACTGTCAGCATTCAATCGTTCACGGATTCTGTTCATA
AGCATGCTCTCAACATTAAAATGCTTAAAGAAGGAATGAAAATTGAAGCGCGTCATGTTC
GTCGTAAGCAATTATCACAATATATTGACGGAAATTATGTAAAGAGAGAAAGAAAAATGT
CTGAAACACTTAATAATTCATCCTCATCAATAACGCAGCTTGCAAAGAAACGACTATCAG
CCGAAACAAGTCTTAATACTAGTAATCCCAAACGTAGTAAATTACATGAATCTTTTGACA
GCACCAACGATTCAACAAATGAGCCCTTATTGGACGACTCTATACCAGCATCTTCTCCAC
CACCAGCTGAGATTTGCACGTGATTGATTTTCTAAAGAGGATAATAAAAATTTTGACTGA
ATGGATGTGTGTGACTGAAAAAATAACTTTGATTCGTGTGCAACCTAAAATTATTAAAAT
TTTCAACTTTCCTGAAATGTATATATTCATTAAATTTCAAATTCTATTTAAATCATAAGT
AAAGATCAAGAAAACATTTTGAAGAGGAATAATTTTAAAGATTATTAAGTCCTTTCTAAA
GAAATAAAAAATACGAATTTTTTATGTACAGTAAAAATCAAAACAAAATACAGCGACGGC
AGGAAATATATTCTTTTAAAAACGTGTACATGATAATATAATATTATCCTATTATTATAA
TTTCTCTGAACGTTCAATATTCAAATATTTCCAACATAA
>g10183.t2 Gene=g10183 Length=137
MWFIGLEFERSANLNVDLTVSIQSFTDSVHKHALNIKMLKEGMKIEARHVRRKQLSQYID
GNYVKRERKMSETLNNSSSSITQLAKKRLSAETSLNTSNPKRSKLHESFDSTNDSTNEPL
LDDSIPASSPPPAEICT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g10183.t2 | Gene3D | G3DSA:3.30.70.590 | - | 1 | 50 | 4.5E-15 |
| 5 | g10183.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 70 | 137 | - |
| 6 | g10183.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 73 | 102 | - |
| 2 | g10183.t2 | PANTHER | PTHR10682 | POLY A POLYMERASE | 1 | 111 | 1.2E-20 |
| 3 | g10183.t2 | PANTHER | PTHR10682:SF6 | POLY(A) POLYMERASE GAMMA | 1 | 111 | 1.2E-20 |
| 1 | g10183.t2 | Pfam | PF04926 | Poly(A) polymerase predicted RNA binding domain | 1 | 68 | 1.1E-7 |
| 4 | g10183.t2 | SUPERFAMILY | SSF55003 | PAP/Archaeal CCA-adding enzyme, C-terminal domain | 1 | 59 | 1.94E-12 |
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:0031123 | RNA 3’-end processing | BP |
| GO:0003723 | RNA binding | MF |
| GO:0043631 | RNA polyadenylation | BP |
| GO:0016779 | nucleotidyltransferase 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.
