Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Serine/threonine-protein kinase/endoribonuclease ire-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_2 g6124 g6124.t3 TTS g6124.t3 14394334 14394334
chr_2 g6124 g6124.t3 isoform g6124.t3 14394434 14395869
chr_2 g6124 g6124.t3 exon g6124.t3.exon1 14394434 14394533
chr_2 g6124 g6124.t3 cds g6124.t3.CDS1 14394434 14394533
chr_2 g6124 g6124.t3 exon g6124.t3.exon2 14394603 14394950
chr_2 g6124 g6124.t3 cds g6124.t3.CDS2 14394603 14394950
chr_2 g6124 g6124.t3 exon g6124.t3.exon3 14395024 14395137
chr_2 g6124 g6124.t3 cds g6124.t3.CDS3 14395024 14395137
chr_2 g6124 g6124.t3 exon g6124.t3.exon4 14395208 14395459
chr_2 g6124 g6124.t3 cds g6124.t3.CDS4 14395208 14395459
chr_2 g6124 g6124.t3 exon g6124.t3.exon5 14395603 14395685
chr_2 g6124 g6124.t3 cds g6124.t3.CDS5 14395603 14395685
chr_2 g6124 g6124.t3 exon g6124.t3.exon6 14395785 14395869
chr_2 g6124 g6124.t3 cds g6124.t3.CDS6 14395785 14395817
chr_2 g6124 g6124.t3 TSS g6124.t3 14395958 14395958

Sequences

>g6124.t3 Gene=g6124 Length=982
ATGAAATTTAATTTTATAATTTTATGTACATTATTACATTTGATTGGATCAAATGGTGAA
CAGCCTAAAAAGCAGGTATAATACTGATTGTACCGATGTACTGCGAACAGAAGAAAAGAA
TGAACCACTTCTAGTGCTTTCGACGTTAAATGGAGATTTGTTAGCTATAGAACCTCAAAA
CGGGGAAGTGAAATGGAAACAAGTTAATGAGCCTTCAGTTAAAACAGAAAATAATGATCA
ATTATCGAACTCTGTGTACTTTCCTGATCCTGTGAGTGGGAGTTTATATAAATTAAAAGT
TCAAGATGATAAAAACAATGTGCTCAAAAAGTTGCCTTTCACAATACCAGAACTTGTCAA
TCGCTCACCATGCAAATCAAGTGATGGTATTTTATACTCTGGAAAAAAATCTGATAATTG
GTTTATAATTGATCCTAAAACCGGCAAACGTGAATTTATTATGGGTTTTGGGGCGAAGGC
AGATTCGTCTGATATTTTAGGATATGCAACTTCACGGTCGGTGTATCTCGGAAGAACACA
ATACACAGTTTTGATGTACGACACAACTGAAACGAATAGCAAACCATGGAACATTTCTTT
TTTCGATTACAATTCACATACTATGGCGCCCGAAATTTTAGAAAAATATGAATTCATTCA
TGTCACTTCTTCTACAACTGGAAAAATTGTTACAATGAGCAAAAAGAACAATAATTTTCT
ATGGTCATTAACTGATGAAAATTATAAATCGCCAATCGTTGCAATTTTTATCCTTTCGAG
TGAAGGCTTTTTAAGTGTACCATTCACAACTGTATCAGAAAATGTTATAGAAAAAGTTCT
TGATTATAGTTTGAGTGAGACAAAAAGTGATTTCCAATTATATGAGACAGTTTATGTGGG
CGAGACAATTGGTCATAATACAGATAATACATTTTATGCCATTCCATCATATATAGATGA
CTCAACAAGGACCATAAAAAAG

>g6124.t3 Gene=g6124 Length=310
MVNSLKSRYNTDCTDVLRTEEKNEPLLVLSTLNGDLLAIEPQNGEVKWKQVNEPSVKTEN
NDQLSNSVYFPDPVSGSLYKLKVQDDKNNVLKKLPFTIPELVNRSPCKSSDGILYSGKKS
DNWFIIDPKTGKREFIMGFGAKADSSDILGYATSRSVYLGRTQYTVLMYDTTETNSKPWN
ISFFDYNSHTMAPEILEKYEFIHVTSSTTGKIVTMSKKNNNFLWSLTDENYKSPIVAIFI
LSSEGFLSVPFTTVSENVIEKVLDYSLSETKSDFQLYETVYVGETIGHNTDNTFYAIPSY
IDDSTRTIKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g6124.t3 CDD cd09769 Luminal_IRE1 24 299 0
8 g6124.t3 Gene3D G3DSA:2.130.10.10 - 21 249 0
1 g6124.t3 PANTHER PTHR13954:SF15 SERINE/THREONINE-PROTEIN KINASE/ENDORIBONUCLEASE IRE2 21 274 0
2 g6124.t3 PANTHER PTHR13954 IRE1-RELATED 21 274 0
5 g6124.t3 SMART SM00564 ire1_9 19 51 47
7 g6124.t3 SMART SM00564 ire1_9 106 138 9
6 g6124.t3 SMART SM00564 ire1_9 150 182 62
4 g6124.t3 SMART SM00564 ire1_9 193 227 620
3 g6124.t3 SUPERFAMILY SSF50998 Quinoprotein alcohol dehydrogenase-like 26 247 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:0005515 protein 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.

Raw TPM values