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.t7 TTS g9611.t7 4279693 4279693
chr_1 g9611 g9611.t7 isoform g9611.t7 4280387 4281465
chr_1 g9611 g9611.t7 exon g9611.t7.exon1 4280387 4281178
chr_1 g9611 g9611.t7 cds g9611.t7.CDS1 4280387 4281178
chr_1 g9611 g9611.t7 exon g9611.t7.exon2 4281246 4281341
chr_1 g9611 g9611.t7 cds g9611.t7.CDS2 4281246 4281341
chr_1 g9611 g9611.t7 exon g9611.t7.exon3 4281445 4281465
chr_1 g9611 g9611.t7 cds g9611.t7.CDS3 4281445 4281465
chr_1 g9611 g9611.t7 TSS g9611.t7 4281719 4281719

Sequences

>g9611.t7 Gene=g9611 Length=909
ATGACAAAAGAAGAAAATATTGTTCAAACATTCTTAACAAGAGATTATCAAAGAAACATT
ATTGATGTATGTCTTAAAAGAAACTCAATTGTTTTTCTCCCAACTGGAGCTGGCAAGACA
TACATCGCTATTCAAGTGATCAAGCACTTCTCAAATCAGCTTGGAATAAAATATTCTGAA
GGTGGAAAGCGTTCTGTTTTCTTAGTAAACACAGTGTATCTTGCAAAGCAACAAGCTGAA
GCTATACAATTTCATATTCCATTTAATGTTCGTGTCGTTACTGGCGAAGAAAATGTTGAT
GCGTTTGAAGAAAGCGATTGGTTAAAAATTTTAGACAACAATGAAGTTTTAGTGATGACA
GCTCAATGCTTTCATGACGCTGTAAATCGCACTTTCATTAAAATGAATCAAATTCGAGTT
GTAATTTTTGATGAATGTCATCATGGTCGTAAAGATCATGTATATCATCAACTTATGCAA
AGCATATCAAACAAACTTGATGAAAACGAATTCAAGAATTTACGAATAATTGGACTTTCA
GGAATGCTTATAGGCGTCGATAACAGTATAAAACCTTACCTAGTTGCTGATGAAATGAAA
CGATTGGAAAGTACTTTTCAGAGTGTAATCATTACAGTTAATAATCTTGATGATCACAAA
AATGTTATTCTTTATTCAACCAAAGCTATCAAGACTGCCATTCTCTTTAATATGACTGCA
TGTTCAAAAACACTTGTTGAAGTAAAGGATTCTCTTTTATGTTTTCAAACAAAATTAGAA
ATGATAAAACTAGACAATTTGGATTATATCAATCCTAGAAATTTACGAAAAACAATTCCA
AAACGAATCAAGGAGCTTATTAACATACTCAAAGATTTTGAACATCAAGCTTTAATGATG
GGAAATTTT

>g9611.t7 Gene=g9611 Length=303
MTKEENIVQTFLTRDYQRNIIDVCLKRNSIVFLPTGAGKTYIAIQVIKHFSNQLGIKYSE
GGKRSVFLVNTVYLAKQQAEAIQFHIPFNVRVVTGEENVDAFEESDWLKILDNNEVLVMT
AQCFHDAVNRTFIKMNQIRVVIFDECHHGRKDHVYHQLMQSISNKLDENEFKNLRIIGLS
GMLIGVDNSIKPYLVADEMKRLESTFQSVIITVNNLDDHKNVILYSTKAIKTAILFNMTA
CSKTLVEVKDSLLCFQTKLEMIKLDNLDYINPRNLRKTIPKRIKELINILKDFEHQALMM
GNF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g9611.t7 CDD cd18034 DEXHc_dicer 14 214 0.000
6 g9611.t7 Gene3D G3DSA:3.40.50.300 - 13 266 0.000
2 g9611.t7 PANTHER PTHR14950:SF36 DICER-2, ISOFORM A 11 245 0.000
3 g9611.t7 PANTHER PTHR14950 DICER-RELATED 11 245 0.000
1 g9611.t7 Pfam PF04851 Type III restriction enzyme, res subunit 14 165 0.000
7 g9611.t7 ProSiteProfiles PS51192 Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. 20 181 17.683
5 g9611.t7 SMART SM00487 ultradead3 9 210 0.000
4 g9611.t7 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 11 183 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