Gene loci information

Transcript annotation

  • This transcript has been annotated as Protein pelota.

Parent gene

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_2 g4944 g4944.t13 isoform g4944.t13 6131026 6131956
chr_2 g4944 g4944.t13 exon g4944.t13.exon1 6131026 6131461
chr_2 g4944 g4944.t13 cds g4944.t13.CDS1 6131027 6131461
chr_2 g4944 g4944.t13 TTS g4944.t13 6131241 6131241
chr_2 g4944 g4944.t13 exon g4944.t13.exon2 6131524 6131670
chr_2 g4944 g4944.t13 cds g4944.t13.CDS2 6131524 6131670
chr_2 g4944 g4944.t13 exon g4944.t13.exon3 6131733 6131829
chr_2 g4944 g4944.t13 cds g4944.t13.CDS3 6131733 6131819
chr_2 g4944 g4944.t13 exon g4944.t13.exon4 6131915 6131956
chr_2 g4944 g4944.t13 TSS g4944.t13 6132074 6132074

Sequences

>g4944.t13 Gene=g4944 Length=722
ATGAAGCTCATATTTAAAAATATTGACCGTGGAAGCGGGTAACTCGATCAAAATGCAGCC
TGAAGAGGCTGAAGATATGTGGCATGCCTACAATCTTATTTCAATAGGTGATTTAATCAC
TGCAAGCACAATTCGAAAAGTCCAAAATGAATCATCTACAGGAAGTTCCACATCAAATCG
AGTTCGAACCACTTTAACACTTAAGATCGAAAATATTGACTATGACACACAGGCTTGCAT
GCTCAGATTAAAAGGTAGAAACGTAGTGGAAAATGATTTTGTTAAGATGGGTGCTTATCA
CACAATAGATTTAGAATTGAATCGTCCATTTACACTAACAAAACCTGAATGGGACTCAAT
TGCTCTTGAAAGAGTTGATATGGCATGTGATGTCACACAAAATGCAGATGTTGCAGCAGT
TATCATGCAAGAAGGCATAGCTCACATTTGTTTAATCACATCAAACATGACTATTGTAAG
GAGTAAAATTGATATGGCCATTCCGAGAAAAAGGAAAAATAATTCATCGCAACATGATAA
AGGACTCACAAAGTTTTATGAAGCTGTTATGGAAGGCATTAAAAGGCACGTAAATTTCGA
CGTCGTAAAGTGCATTCTCATTGCCTCACCAGCTTTTGTAAAAGACGCATTCTTTGATTT
TATGATTCAAACAGCGACAAGAACTGACCAAAAAGTCATTCTCGATAACAAGAGTAAATT
TA

>g4944.t13 Gene=g4944 Length=223
MQPEEAEDMWHAYNLISIGDLITASTIRKVQNESSTGSSTSNRVRTTLTLKIENIDYDTQ
ACMLRLKGRNVVENDFVKMGAYHTIDLELNRPFTLTKPEWDSIALERVDMACDVTQNADV
AAVIMQEGIAHICLITSNMTIVRSKIDMAIPRKRKNNSSQHDKGLTKFYEAVMEGIKRHV
NFDVVKCILIASPAFVKDAFFDFMIQTATRTDQKVILDNKSKF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g4944.t13 Gene3D G3DSA:2.30.30.870 - 1 115 0
8 g4944.t13 Gene3D G3DSA:3.30.420.60 - 118 223 0
3 g4944.t13 PANTHER PTHR10853 PELOTA 1 223 0
4 g4944.t13 PANTHER PTHR10853:SF0 PROTEIN PELOTA HOMOLOG 1 223 0
2 g4944.t13 Pfam PF03463 eRF1 domain 1 2 112 0
1 g4944.t13 Pfam PF03464 eRF1 domain 2 119 217 0
7 g4944.t13 SMART SM01194 eRF1_1_2 1 113 0
5 g4944.t13 SUPERFAMILY SSF159065 Dom34/Pelota N-terminal domain-like 1 113 0
6 g4944.t13 SUPERFAMILY SSF53137 Translational machinery components 115 223 0

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:0070966 nuclear-transcribed mRNA catabolic process, no-go decay BP
GO:0070481 nuclear-transcribed mRNA catabolic process, non-stop decay BP
GO:0071025 RNA surveillance BP

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