Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine/threonine-protein kinase/endoribonuclease IRE1.

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.t1 TTS g6124.t1 14390882 14390882
chr_2 g6124 g6124.t1 isoform g6124.t1 14391045 14395869
chr_2 g6124 g6124.t1 exon g6124.t1.exon1 14391045 14392004
chr_2 g6124 g6124.t1 cds g6124.t1.CDS1 14391045 14392004
chr_2 g6124 g6124.t1 exon g6124.t1.exon2 14392071 14392639
chr_2 g6124 g6124.t1 cds g6124.t1.CDS2 14392071 14392639
chr_2 g6124 g6124.t1 exon g6124.t1.exon3 14393727 14393823
chr_2 g6124 g6124.t1 cds g6124.t1.CDS3 14393727 14393823
chr_2 g6124 g6124.t1 exon g6124.t1.exon4 14393906 14394533
chr_2 g6124 g6124.t1 cds g6124.t1.CDS4 14393906 14394533
chr_2 g6124 g6124.t1 exon g6124.t1.exon5 14394603 14394950
chr_2 g6124 g6124.t1 cds g6124.t1.CDS5 14394603 14394950
chr_2 g6124 g6124.t1 exon g6124.t1.exon6 14395024 14395137
chr_2 g6124 g6124.t1 cds g6124.t1.CDS6 14395024 14395137
chr_2 g6124 g6124.t1 exon g6124.t1.exon7 14395208 14395459
chr_2 g6124 g6124.t1 cds g6124.t1.CDS7 14395208 14395459
chr_2 g6124 g6124.t1 exon g6124.t1.exon8 14395603 14395685
chr_2 g6124 g6124.t1 cds g6124.t1.CDS8 14395603 14395685
chr_2 g6124 g6124.t1 exon g6124.t1.exon9 14395795 14395869
chr_2 g6124 g6124.t1 cds g6124.t1.CDS9 14395795 14395869
chr_2 g6124 g6124.t1 TSS g6124.t1 14395958 14395958

Sequences

>g6124.t1 Gene=g6124 Length=3126
ATGAAATTTAATTTTATAATTTTATGTACATTATTACATTTGATTGGATCAAATGGTGAA
CAGCCTAAAAAGCAGGATTGTACCGATGTACTGCGAACAGAAGAAAAGAATGAACCACTT
CTAGTGCTTTCGACGTTAAATGGAGATTTGTTAGCTATAGAACCTCAAAACGGGGAAGTG
AAATGGAAACAAGTTAATGAGCCTTCAGTTAAAACAGAAAATAATGATCAATTATCGAAC
TCTGTGTACTTTCCTGATCCTGTGAGTGGGAGTTTATATAAATTAAAAGTTCAAGATGAT
AAAAACAATGTGCTCAAAAAGTTGCCTTTCACAATACCAGAACTTGTCAATCGCTCACCA
TGCAAATCAAGTGATGGTATTTTATACTCTGGAAAAAAATCTGATAATTGGTTTATAATT
GATCCTAAAACCGGCAAACGTGAATTTATTATGGGTTTTGGGGCGAAGGCAGATTCGTCT
GATATTTTAGGATATGCAACTTCACGGTCGGTGTATCTCGGAAGAACACAATACACAGTT
TTGATGTACGACACAACTGAAACGAATAGCAAACCATGGAACATTTCTTTTTTCGATTAC
AATTCACATACTATGGCGCCCGAAATTTTAGAAAAATATGAATTCATTCATGTCACTTCT
TCTACAACTGGAAAAATTGTTACAATGAGCAAAAAGAACAATAATTTTCTATGGTCATTA
ACTGATGAAAATTATAAATCGCCAATCGTTGCAATTTTTATCCTTTCGAGTGAAGGCTTT
TTAAGTGTACCATTCACAACTGTATCAGAAAATGTTATAGAAAAAGTTCTTGATTATAGT
TTGAGTGAGACAAAAAGTGATTTCCAATTATATGAGACAGTTTATGTGGGCGAGACAATT
GGTCATAATACAGATAATACATTTTATGCCATTCCATCATATATAGATGACTCAACAAGG
ACCATAAAAAAGAATAAAAATTTTGCAAATTTATTAGAAGGACCAAAAGGACAAAGTTCA
CAATATAATCAGAATGATGATGAAGCGGTAGTGACAAATGAGGAAAATCAGCAAAAAGAA
AAAGTGAAGGAGAAGCGAAATGAGAAGATTATTTATTATGGTTATTATGAAACCCCACAA
ACTGACACATTTTTCGAGACACTCCCATCAGCAAAATCTGTCAATTCAAACAACAATGAA
TTGTCCCTCATAAAGAATCATAATTTTGCTAATTTATACAACAAAGTAAATAGTGATCAA
GAGAAGAAAATCATCATAGACAGTCAAATTTCTGATGATATTGGAAATTTATCCACTGCA
CCAAAGTCAAATAAAAACAGTGCAATTGAGAGTCAAGAATTTAAGAAAATTGGCTTACTT
AAGTATGCTGTAAATTACTTTAAAAGCTATGATGACAGCCAAATTTTAAAATTAGTTGTA
ATAATTTTGATCGGCTTTCTGATAACATTAATTTGGCTATACCATTCAACATCAAAACAG
CTGCGACAACAATCACAAAATGGCTCTAAAACATTCCTCAGCTCCGGCAATTCAAGTGGC
GGTAGCAGTAATTATGAACTTCTCTCATACGAAGGCGACGATTGCATAAAAATAGGCAAA
ATAACGTTTCATCCACAACAAATTCTTGGAAAAGGATGTGAAGGAACTTTTGTATTCAAA
GGATCGTTTGAAAATCGAGATGTTGCCGTGAAGAGGCTTTTACCTGACTGCTTCACTCTT
GCAGATCGTGAAGTTGCACTTTTAAGAGAATCAGATACACATGAGAATGTCGTTAGATAT
TTCTGCACTGAAAGCGATCGTCAATTTAGGTACATAGCTGTTGAATTATGTACTGCAACA
CTTCAAGATTATATTGAAGGAAAAGAAGCTGAAAGACTTCAACAGTTGATAAATTTTAAA
GAAATTTTGTATCAAGCTACTAACGGATTAAATCATTTACATCATTTAAATATTGTTCAT
CGTGACGTCAAACCACAAAATATTCTTCTATCTTTACCTGATAATAAAAATAGAGTTCGT
GCATTAATTTCTGATTTCGGATTATGCAAAAAAATGAATATAGGAAAAGCATCATTTTCG
AAAAAATCGGGTATAACAGGCACTGAAGGATGGATAGCACCAGAAATGTTAAAAGGGCAT
AGAACTACTATAGCAGTAGATGTATTTTCTATGGGCTGTGTATATTATTATGTGATGTCA
AATGGTAGTCACCCATTTGGTGATAACTTGAAGCGTCAAGCAAACATTTTAGCAAATGAT
TACAATATCAGTGATTTGTCAACGAAAAAAATTCGTGACTATGAGAGTATCCTTGCAACT
GAAGTGATAGCTGACATGATTAATAAAGATTCATCGAAGCGACCAAGTACAGAGGCAATT
TTAAAGCATCCACTATTTTGGCGAGAGGAGAAAATTTTGAGTTTCTTTCAGGACGTATCA
GATCGTATAGAAAAACTTGATTTAAATAATGAACCATTAAGAACATTAGAGAGAAATGCT
TCAATGGTTGTGCGCGAAGATTGGAGTTTACATTTACATGAAAGTATCACTGCCGACTTA
AGAAAATATAGAGGATATTTTGGAATGAGTGTACGATGTCTTTTGCGTGCATTAAGAAAT
AAAAAGCATCATTATCATGAATTATCAAACGATATGCAGAGAATTATGGGTGCAATACCA
GTTGAATTTGTACGTTATTGGATATATCGCTTTCCTCATCTTCTTTCACACACATATCAT
TCAATTGAACAGTGTAGCAAAGAAAACATTTTTAAACGATATTACAGTCCGCAGTATCAA
TTTACAAAACCAGATTATCTTTTTGATGAATCGCTTGATAATTTTGCACTTCAAAACAAT
CAAGAATGTGCAAAACCACTTTCGAAGGAGAAATATTTTAATAATAACAAGAAAGAAAAT
CGAGGACAACAGAATAATTTAATAAAGCGCAATAATAAAGGAACGTACAATTTTAACAAA
ATACAAGGAAACAACAAATCTGCGGATGTAGGGTTCATTACCAGAGATATGATGATGCAA
TCCACAGATGTACTAAAAGGTGGAGGAGAAAATTTAGCGAAAGACACAATTGTGTGGAAA
TTGTAA

>g6124.t1 Gene=g6124 Length=1041
MKFNFIILCTLLHLIGSNGEQPKKQDCTDVLRTEEKNEPLLVLSTLNGDLLAIEPQNGEV
KWKQVNEPSVKTENNDQLSNSVYFPDPVSGSLYKLKVQDDKNNVLKKLPFTIPELVNRSP
CKSSDGILYSGKKSDNWFIIDPKTGKREFIMGFGAKADSSDILGYATSRSVYLGRTQYTV
LMYDTTETNSKPWNISFFDYNSHTMAPEILEKYEFIHVTSSTTGKIVTMSKKNNNFLWSL
TDENYKSPIVAIFILSSEGFLSVPFTTVSENVIEKVLDYSLSETKSDFQLYETVYVGETI
GHNTDNTFYAIPSYIDDSTRTIKKNKNFANLLEGPKGQSSQYNQNDDEAVVTNEENQQKE
KVKEKRNEKIIYYGYYETPQTDTFFETLPSAKSVNSNNNELSLIKNHNFANLYNKVNSDQ
EKKIIIDSQISDDIGNLSTAPKSNKNSAIESQEFKKIGLLKYAVNYFKSYDDSQILKLVV
IILIGFLITLIWLYHSTSKQLRQQSQNGSKTFLSSGNSSGGSSNYELLSYEGDDCIKIGK
ITFHPQQILGKGCEGTFVFKGSFENRDVAVKRLLPDCFTLADREVALLRESDTHENVVRY
FCTESDRQFRYIAVELCTATLQDYIEGKEAERLQQLINFKEILYQATNGLNHLHHLNIVH
RDVKPQNILLSLPDNKNRVRALISDFGLCKKMNIGKASFSKKSGITGTEGWIAPEMLKGH
RTTIAVDVFSMGCVYYYVMSNGSHPFGDNLKRQANILANDYNISDLSTKKIRDYESILAT
EVIADMINKDSSKRPSTEAILKHPLFWREEKILSFFQDVSDRIEKLDLNNEPLRTLERNA
SMVVREDWSLHLHESITADLRKYRGYFGMSVRCLLRALRNKKHHYHELSNDMQRIMGAIP
VEFVRYWIYRFPHLLSHTYHSIEQCSKENIFKRYYSPQYQFTKPDYLFDESLDNFALQNN
QECAKPLSKEKYFNNNKKENRGQQNNLIKRNNKGTYNFNKIQGNNKSADVGFITRDMMMQ
STDVLKGGGENLAKDTIVWKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g6124.t1 CDD cd09769 Luminal_IRE1 38 313 4.33955E-73
20 g6124.t1 CDD cd13982 STKc_IRE1 540 807 4.70977E-145
21 g6124.t1 CDD cd10422 RNase_Ire1 810 935 3.12586E-52
8 g6124.t1 Gene3D G3DSA:2.130.10.10 - 36 263 1.4E-7
9 g6124.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 534 615 1.1E-35
10 g6124.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 616 808 1.4E-49
11 g6124.t1 Gene3D G3DSA:1.20.1440.180 - 809 950 2.1E-44
3 g6124.t1 PANTHER PTHR13954:SF15 SERINE/THREONINE-PROTEIN KINASE/ENDORIBONUCLEASE IRE2 36 939 1.7E-232
4 g6124.t1 PANTHER PTHR13954 IRE1-RELATED 36 939 1.7E-232
2 g6124.t1 Pfam PF00069 Protein kinase domain 544 806 2.2E-44
1 g6124.t1 Pfam PF06479 Ribonuclease 2-5A 813 935 2.4E-36
14 g6124.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
15 g6124.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
16 g6124.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 15 -
18 g6124.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 19 -
13 g6124.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 474 -
17 g6124.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 475 494 -
12 g6124.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 495 1041 -
23 g6124.t1 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 658 670 -
31 g6124.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 543 806 36.146
30 g6124.t1 ProSiteProfiles PS51392 KEN domain profile. 809 937 31.703
29 g6124.t1 SMART SM00564 ire1_9 33 65 47.0
27 g6124.t1 SMART SM00564 ire1_9 120 152 9.0
28 g6124.t1 SMART SM00564 ire1_9 164 196 62.0
26 g6124.t1 SMART SM00564 ire1_9 207 241 620.0
25 g6124.t1 SMART SM00220 serkin_6 543 806 8.4E-46
24 g6124.t1 SMART SM00580 PGNneu 869 926 6.1E-9
6 g6124.t1 SUPERFAMILY SSF50998 Quinoprotein alcohol dehydrogenase-like 40 261 3.61E-8
5 g6124.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 543 817 4.37E-55
7 g6124.t1 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -
22 g6124.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 475 494 -

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:0006397 mRNA processing BP
GO:0005524 ATP binding MF
GO:0005515 protein binding MF
GO:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation BP
GO:0004540 ribonuclease activity MF

KEGG

Pathway

  • This transcript belongs to the following pathways

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