Gene loci information

Transcript annotation

  • This transcript has been annotated as 5’-3’ exoribonuclease 2-like protein.

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 g8673 g8673.t2 TSS g8673.t2 32185667 32185667
chr_2 g8673 g8673.t2 isoform g8673.t2 32185768 32186323
chr_2 g8673 g8673.t2 exon g8673.t2.exon1 32185768 32185842
chr_2 g8673 g8673.t2 cds g8673.t2.CDS1 32185768 32185842
chr_2 g8673 g8673.t2 exon g8673.t2.exon2 32185918 32186323
chr_2 g8673 g8673.t2 cds g8673.t2.CDS2 32185918 32186322
chr_2 g8673 g8673.t2 TTS g8673.t2 NA NA

Sequences

>g8673.t2 Gene=g8673 Length=481
ATGGGAGTTCCAGCATTCTTTAGATGGTTATCAAGAAAGTATCCTAGTGTGATTATTGAA
TGTACAGAAAATAAGCGTGTTGATGAAGAAACAGGAAAGAATGTATACGAAGATTCATCA
TTACCCAATCCAAATGATATAGAATTTGACAATCTTTATCTCGATATGAACGGAATTATT
CATCCTTGCACACATCCAGAAGATAAACCGCCTCCAAAAAATGAAAATGAGATGATGATT
GCCATTTTTGAATGCATTGATCGACTTTTCTCAATTGTAAGACCAAGAAAATTACTTTAT
ATGGCAATTGATGGCGTTGCACCTCGAGCTAAAATGAATCAGCAACGTTCAAGACGTTTT
CGAGCTTCAAAAGAAGCTGCCGAAAAAGCAGCTGAAATTGCTCGAATAAGAGAAGAATTG
AAAGAAAAAGGAGCTATTCTTCCACCTGAAAAACCAAAAGAACATCATTTTGATTCAAAT
T

>g8673.t2 Gene=g8673 Length=160
MGVPAFFRWLSRKYPSVIIECTENKRVDEETGKNVYEDSSLPNPNDIEFDNLYLDMNGII
HPCTHPEDKPPPKNENEMMIAIFECIDRLFSIVRPRKLLYMAIDGVAPRAKMNQQRSRRF
RASKEAAEKAAEIARIREELKEKGAILPPEKPKEHHFDSN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g8673.t2 Coils Coil Coil 123 143 -
5 g8673.t2 Gene3D G3DSA:3.40.50.12390 - 1 141 2.5E-44
4 g8673.t2 MobiDBLite mobidb-lite consensus disorder prediction 141 160 -
2 g8673.t2 PANTHER PTHR12341:SF41 5’-3’ EXORIBONUCLEASE 2 1 160 1.1E-68
3 g8673.t2 PANTHER PTHR12341 5’->3’ EXORIBONUCLEASE 1 160 1.1E-68
1 g8673.t2 Pfam PF03159 XRN 5’-3’ exonuclease N-terminus 1 160 1.7E-49

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:0004527 exonuclease activity MF
GO:0003676 nucleic acid binding 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. There were no conditions that were differentially expressed