General information for g10183.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Poly(A) polymerase alpha.
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.t5 | TTS | g10183.t5 | 8142046 | 8142046 |
| chr_1 | g10183 | g10183.t5 | isoform | g10183.t5 | 8142779 | 8143970 |
| chr_1 | g10183 | g10183.t5 | exon | g10183.t5.exon1 | 8142779 | 8143618 |
| chr_1 | g10183 | g10183.t5 | cds | g10183.t5.CDS1 | 8142780 | 8143502 |
| chr_1 | g10183 | g10183.t5 | exon | g10183.t5.exon2 | 8143876 | 8143970 |
| chr_1 | g10183 | g10183.t5 | TSS | g10183.t5 | 8144013 | 8144013 |
Sequences
>g10183.t5 Gene=g10183 Length=935
ATCGGGTTCTTGCAAGAGTAGCAGGTTACAAACAATGCTTTTAATAAGCATATAAGCATT
CATCCTACCCGAAGAAATTGAGGTTTATATATAAGGTACCTAACACAAGAAAGAAAATAA
TACATTTTATAGCTACATCAGTTTACAGTTAGTGTTTGACGAATAATAATAATATCAAGT
TATACAAAAACAAAACACACATTATATAAAAATGAACAATATAAATATTCAGAAGAATGG
AGCTCAACAACAACAGCAGCAGCCACCTCCACCAACATCATCCACTGCTAAACAATTAGG
TATGACTTCAGCAATAAGTCTTGCGATGCCAAAACCTGAAGACTTAAAAAGGACAAGCGA
TTTAGAAGGAACTTTAAAGCCATATAATGTATTTGAAACTGAACAAGAGTTAAATCATCG
TATGGAAATATTAGCAAAGCTCAATACTCTTGTAAAACAGTGGGTCAAAGATGTTTCGAT
AAAGAAAAATATGCCTGAACAGATGGCAGAGAAGCTTGGCGGGAAAATATATACATTCGG
TTCATATAGACTAGGTGTTCATCATCGTGGTGCAGATATCGATGCACTTTGTGTTGCACC
TCGAAACATCGAACGATCAGACTATTTTACCTCTTTCTTTGAACTTCTTAAACAACAACC
AGAAGTAACAGAATGTCGTGCAGTTGAAGAAGCATTTGTTCCCGTCATTAAAATGAATTT
TGATGGCATTGAAATTGATTTGCTTTTTGCACGATTAGCTCTTAAAGAAATTCCAGATAG
TTTTGATCTCCGAGATGATTTGCTGCTTAAAAATCTTGATCCTCGATGTGTTCGAAGTTT
GAATGGATGTCGTGTAACCGATGAAATTCTTCGCTTAGTTCCCAATATAGAGAACTTTCG
TTTGGCATTACGTACAATTAAGTTATGGGCAAAAA
>g10183.t5 Gene=g10183 Length=241
MNNINIQKNGAQQQQQQPPPPTSSTAKQLGMTSAISLAMPKPEDLKRTSDLEGTLKPYNV
FETEQELNHRMEILAKLNTLVKQWVKDVSIKKNMPEQMAEKLGGKIYTFGSYRLGVHHRG
ADIDALCVAPRNIERSDYFTSFFELLKQQPEVTECRAVEEAFVPVIKMNFDGIEIDLLFA
RLALKEIPDSFDLRDDLLLKNLDPRCVRSLNGCRVTDEILRLVPNIENFRLALRTIKLWA
K
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g10183.t5 | CDD | cd05402 | NT_PAP_TUTase | 69 | 223 | 1.09743E-28 |
| 7 | g10183.t5 | Gene3D | G3DSA:3.30.460.10 | Beta Polymerase | 62 | 217 | 3.1E-66 |
| 6 | g10183.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 26 | - |
| 3 | g10183.t5 | PANTHER | PTHR10682 | POLY A POLYMERASE | 22 | 241 | 8.7E-110 |
| 4 | g10183.t5 | PANTHER | PTHR10682:SF9 | POLY(A) POLYMERASE ALPHA | 22 | 241 | 8.7E-110 |
| 1 | g10183.t5 | Pfam | PF04928 | Poly(A) polymerase central domain | 30 | 241 | 5.5E-44 |
| 2 | g10183.t5 | Pfam | PF01909 | Nucleotidyltransferase domain | 96 | 183 | 1.6E-11 |
| 5 | g10183.t5 | SUPERFAMILY | SSF81301 | Nucleotidyltransferase | 27 | 221 | 2.29E-53 |
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:0004652 | polynucleotide adenylyltransferase activity | 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.
