Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Endoribonuclease dcr-1.

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_1 g9611 g9611.t6 TTS g9611.t6 4279693 4279693
chr_1 g9611 g9611.t6 isoform g9611.t6 4280387 4281465
chr_1 g9611 g9611.t6 exon g9611.t6.exon1 4280387 4281178
chr_1 g9611 g9611.t6 cds g9611.t6.CDS1 4280387 4281178
chr_1 g9611 g9611.t6 exon g9611.t6.exon2 4281246 4281341
chr_1 g9611 g9611.t6 cds g9611.t6.CDS2 4281246 4281341
chr_1 g9611 g9611.t6 exon g9611.t6.exon3 4281436 4281465
chr_1 g9611 g9611.t6 cds g9611.t6.CDS3 4281436 4281465
chr_1 g9611 g9611.t6 TSS g9611.t6 4281719 4281719

Sequences

>g9611.t6 Gene=g9611 Length=918
ATGACAAAAGAAGAAAATATTGTAAGTGAGGTTCAAACATTCTTAACAAGAGATTATCAA
AGAAACATTATTGATGTATGTCTTAAAAGAAACTCAATTGTTTTTCTCCCAACTGGAGCT
GGCAAGACATACATCGCTATTCAAGTGATCAAGCACTTCTCAAATCAGCTTGGAATAAAA
TATTCTGAAGGTGGAAAGCGTTCTGTTTTCTTAGTAAACACAGTGTATCTTGCAAAGCAA
CAAGCTGAAGCTATACAATTTCATATTCCATTTAATGTTCGTGTCGTTACTGGCGAAGAA
AATGTTGATGCGTTTGAAGAAAGCGATTGGTTAAAAATTTTAGACAACAATGAAGTTTTA
GTGATGACAGCTCAATGCTTTCATGACGCTGTAAATCGCACTTTCATTAAAATGAATCAA
ATTCGAGTTGTAATTTTTGATGAATGTCATCATGGTCGTAAAGATCATGTATATCATCAA
CTTATGCAAAGCATATCAAACAAACTTGATGAAAACGAATTCAAGAATTTACGAATAATT
GGACTTTCAGGAATGCTTATAGGCGTCGATAACAGTATAAAACCTTACCTAGTTGCTGAT
GAAATGAAACGATTGGAAAGTACTTTTCAGAGTGTAATCATTACAGTTAATAATCTTGAT
GATCACAAAAATGTTATTCTTTATTCAACCAAAGCTATCAAGACTGCCATTCTCTTTAAT
ATGACTGCATGTTCAAAAACACTTGTTGAAGTAAAGGATTCTCTTTTATGTTTTCAAACA
AAATTAGAAATGATAAAACTAGACAATTTGGATTATATCAATCCTAGAAATTTACGAAAA
ACAATTCCAAAACGAATCAAGGAGCTTATTAACATACTCAAAGATTTTGAACATCAAGCT
TTAATGATGGGAAATTTT

>g9611.t6 Gene=g9611 Length=306
MTKEENIVSEVQTFLTRDYQRNIIDVCLKRNSIVFLPTGAGKTYIAIQVIKHFSNQLGIK
YSEGGKRSVFLVNTVYLAKQQAEAIQFHIPFNVRVVTGEENVDAFEESDWLKILDNNEVL
VMTAQCFHDAVNRTFIKMNQIRVVIFDECHHGRKDHVYHQLMQSISNKLDENEFKNLRII
GLSGMLIGVDNSIKPYLVADEMKRLESTFQSVIITVNNLDDHKNVILYSTKAIKTAILFN
MTACSKTLVEVKDSLLCFQTKLEMIKLDNLDYINPRNLRKTIPKRIKELINILKDFEHQA
LMMGNF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g9611.t6 CDD cd18034 DEXHc_dicer 17 217 0.000
6 g9611.t6 Gene3D G3DSA:3.40.50.300 - 16 269 0.000
2 g9611.t6 PANTHER PTHR14950:SF36 DICER-2, ISOFORM A 14 248 0.000
3 g9611.t6 PANTHER PTHR14950 DICER-RELATED 14 248 0.000
1 g9611.t6 Pfam PF04851 Type III restriction enzyme, res subunit 17 168 0.000
7 g9611.t6 ProSiteProfiles PS51192 Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. 23 184 17.683
5 g9611.t6 SMART SM00487 ultradead3 12 213 0.000
4 g9611.t6 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 14 186 0.000

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:0003677 DNA binding MF
GO:0016787 hydrolase activity MF
GO:0005524 ATP 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