General information for g10183.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t4 | TTS | g10183.t4 | 8140912 | 8140912 |
| chr_1 | g10183 | g10183.t4 | isoform | g10183.t4 | 8141569 | 8143970 |
| chr_1 | g10183 | g10183.t4 | exon | g10183.t4.exon1 | 8141569 | 8141791 |
| chr_1 | g10183 | g10183.t4 | cds | g10183.t4.CDS1 | 8141570 | 8141791 |
| chr_1 | g10183 | g10183.t4 | exon | g10183.t4.exon2 | 8141849 | 8142684 |
| chr_1 | g10183 | g10183.t4 | cds | g10183.t4.CDS2 | 8141849 | 8142631 |
| chr_1 | g10183 | g10183.t4 | exon | g10183.t4.exon3 | 8142837 | 8143618 |
| chr_1 | g10183 | g10183.t4 | exon | g10183.t4.exon4 | 8143876 | 8143970 |
| chr_1 | g10183 | g10183.t4 | TSS | g10183.t4 | 8144013 | 8144013 |
Sequences
>g10183.t4 Gene=g10183 Length=1936
ATCGGGTTCTTGCAAGAGTAGCAGGTTACAAACAATGCTTTTAATAAGCATATAAGCATT
CATCCTACCCGAAGAAATTGAGGTTTATATATAAGGTACCTAACACAAGAAAGAAAATAA
TACATTTTATAGCTACATCAGTTTACAGTTAGTGTTTGACGAATAATAATAATATCAAGT
TATACAAAAACAAAACACACATTATATAAAAATGAACAATATAAATATTCAGAAGAATGG
AGCTCAACAACAACAGCAGCAGCCACCTCCACCAACATCATCCACTGCTAAACAATTAGG
TATGACTTCAGCAATAAGTCTTGCGATGCCAAAACCTGAAGACTTAAAAAGGACAAGCGA
TTTAGAAGGAACTTTAAAGCCATATAATGTATTTGAAACTGAACAAGAGTTAAATCATCG
TATGGAAATATTAGCAAAGCTCAATACTCTTGTAAAACAGTGGGTCAAAGATGTTTCGAT
AAAGAAAAATATGCCTGAACAGATGGCAGAGAAGCTTGGCGGGAAAATATATACATTCGG
TTCATATAGACTAGGTGTTCATCATCGTGGTGCAGATATCGATGCACTTTGTGTTGCACC
TCGAAACATCGAACGATCAGACTATTTTACCTCTTTCTTTGAACTTCTTAAACAACAACC
AGAAGTAACAGAATGTCGTGCAGTTGAAGAAGCATTTGTTCCCGTCATTAAAATGAATTT
TGATGGCATTGAAATTGATTTGCTTTTTGCACGATTAGCTCTTAAAGAAATTCCAGATAG
TTTTGATCTCCGAGATGATTTGCTGCTTAAAAATCTTGATCCTCGATGTGTTCGAAGTTT
GAATGGATGTCGTGTAACCGATGAAATTCTTCGCTTAAACATGGAATTTATTCGAATTCA
TTAGGCTATTTTGGCGGTGTTTCATGGGCAATGCTAGTGGCAAGAACATGTCAACTCTAT
CCAAATGCTGCGGCAGCTACACTTGTTCATAAATTTTTCTTAGTATTCTCACGTTGGAAG
TGGCCTCAGCCGGTATTACTTAAACAACCTGATACAGTTAATTTAGGTTTCGCAGTTTGG
GATCCTCGTATTAATGCACAAGATAGATATCATTTGATGCCTATTATTACACCAGCCTAT
CCACAGCAAAATTCTACTTTCAATGTTTCAATCTCAACTTCAAAAGTAATTCAAAATGAA
TTTAAAGAAGGAATGGAAATTACTGATGAAATAATGCTCGGTAAAGCTGATTGGGATAAA
CTCTTTCAACCACCAAATTTCTTTACAAAATATCGTCACTTTATTGTTCTCCTGGTTAGC
TCAGCAACAGCTGACGATCATTTGGAATGGTGTGGTTTAATTGAGTCAAAAATTCGTATT
CTCATTGGAAATTTGGAACGAAATCAGCATATTAATCTTGCCCATGTTAATCCAAAATGT
TTCGAAAAATCTACAGGTAGTGCAAAAGAAAAAGGAACAACTGCAGTAAATAAACAGCCT
ACTGCAGTCATTAGTGAAAAAAATGAAAATGAAAGTGAAAAAAATACAGAAAAGCTTGAA
ACGACAACGAGTGATAATAATGAAGAGTCACAAAATGAATCTGAATATTGTTCAATGTGG
TTCATAGGACTTGAATTTGAACGATCTGCTAATCTTAACGTTGACCTTACTGTCAGCATT
CAATCGTTCACGGATTCTGTTCATAAGCATGCTCTCAACATTAAAATGCTTAAAGAAGGA
ATGAAAATTGAAGCGCGTCATGTTCGTCGTAAGCAATTATCACAATATATTGACGGAAAT
TATGTAAAGAGAGAAAGAAAAATGTCTGAAACACTTAATAATTCATCCTCATCAATAACG
CAGCTTGCAAAGAAACGACTATCAGCCGAAACAAGTCTTAATACTAGTAATCCCAAACGT
AGTAAATTACATGAAT
>g10183.t4 Gene=g10183 Length=335
MLVARTCQLYPNAAAATLVHKFFLVFSRWKWPQPVLLKQPDTVNLGFAVWDPRINAQDRY
HLMPIITPAYPQQNSTFNVSISTSKVIQNEFKEGMEITDEIMLGKADWDKLFQPPNFFTK
YRHFIVLLVSSATADDHLEWCGLIESKIRILIGNLERNQHINLAHVNPKCFEKSTGSAKE
KGTTAVNKQPTAVISEKNENESEKNTEKLETTTSDNNEESQNESEYCSMWFIGLEFERSA
NLNVDLTVSIQSFTDSVHKHALNIKMLKEGMKIEARHVRRKQLSQYIDGNYVKRERKMSE
TLNNSSSSITQLAKKRLSAETSLNTSNPKRSKLHE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g10183.t4 | Gene3D | G3DSA:1.10.1410.10 | - | 1 | 115 | 3.3E-49 |
| 10 | g10183.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 174 | 221 | - |
| 9 | g10183.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 177 | 196 | - |
| 12 | g10183.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 197 | 214 | - |
| 11 | g10183.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 299 | 335 | - |
| 13 | g10183.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 301 | 328 | - |
| 4 | g10183.t4 | PANTHER | PTHR10682 | POLY A POLYMERASE | 1 | 181 | 8.0E-125 |
| 6 | g10183.t4 | PANTHER | PTHR10682:SF6 | POLY(A) POLYMERASE GAMMA | 1 | 181 | 8.0E-125 |
| 3 | g10183.t4 | PANTHER | PTHR10682 | POLY A POLYMERASE | 217 | 311 | 8.0E-125 |
| 5 | g10183.t4 | PANTHER | PTHR10682:SF6 | POLY(A) POLYMERASE GAMMA | 217 | 311 | 8.0E-125 |
| 2 | g10183.t4 | Pfam | PF04928 | Poly(A) polymerase central domain | 1 | 113 | 1.3E-50 |
| 1 | g10183.t4 | Pfam | PF04926 | Poly(A) polymerase predicted RNA binding domain | 116 | 296 | 4.5E-39 |
| 7 | g10183.t4 | SUPERFAMILY | SSF81631 | PAP/OAS1 substrate-binding domain | 1 | 114 | 7.06E-40 |
| 8 | g10183.t4 | SUPERFAMILY | SSF55003 | PAP/Archaeal CCA-adding enzyme, C-terminal domain | 116 | 287 | 1.1E-43 |
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:0004652 | polynucleotide adenylyltransferase activity | MF |
| 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.
