Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine/threonine-protein kinase ULK1.

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_3 g1322 g1322.t1 TTS g1322.t1 9690189 9690189
chr_3 g1322 g1322.t1 isoform g1322.t1 9690202 9696444
chr_3 g1322 g1322.t1 exon g1322.t1.exon1 9690202 9690278
chr_3 g1322 g1322.t1 cds g1322.t1.CDS1 9690202 9690278
chr_3 g1322 g1322.t1 exon g1322.t1.exon2 9690341 9690476
chr_3 g1322 g1322.t1 cds g1322.t1.CDS2 9690341 9690476
chr_3 g1322 g1322.t1 exon g1322.t1.exon3 9690537 9690673
chr_3 g1322 g1322.t1 cds g1322.t1.CDS3 9690537 9690673
chr_3 g1322 g1322.t1 exon g1322.t1.exon4 9690869 9691154
chr_3 g1322 g1322.t1 cds g1322.t1.CDS4 9690869 9691154
chr_3 g1322 g1322.t1 exon g1322.t1.exon5 9691212 9691742
chr_3 g1322 g1322.t1 cds g1322.t1.CDS5 9691212 9691742
chr_3 g1322 g1322.t1 exon g1322.t1.exon6 9691838 9691952
chr_3 g1322 g1322.t1 cds g1322.t1.CDS6 9691838 9691952
chr_3 g1322 g1322.t1 exon g1322.t1.exon7 9692030 9692186
chr_3 g1322 g1322.t1 cds g1322.t1.CDS7 9692030 9692186
chr_3 g1322 g1322.t1 exon g1322.t1.exon8 9694360 9694634
chr_3 g1322 g1322.t1 cds g1322.t1.CDS8 9694360 9694634
chr_3 g1322 g1322.t1 exon g1322.t1.exon9 9694699 9694866
chr_3 g1322 g1322.t1 cds g1322.t1.CDS9 9694699 9694866
chr_3 g1322 g1322.t1 exon g1322.t1.exon10 9694931 9695123
chr_3 g1322 g1322.t1 cds g1322.t1.CDS10 9694931 9695123
chr_3 g1322 g1322.t1 exon g1322.t1.exon11 9695204 9695291
chr_3 g1322 g1322.t1 cds g1322.t1.CDS11 9695204 9695291
chr_3 g1322 g1322.t1 exon g1322.t1.exon12 9695370 9695543
chr_3 g1322 g1322.t1 cds g1322.t1.CDS12 9695370 9695543
chr_3 g1322 g1322.t1 exon g1322.t1.exon13 9696355 9696444
chr_3 g1322 g1322.t1 cds g1322.t1.CDS13 9696355 9696444
chr_3 g1322 g1322.t1 TSS g1322.t1 9696734 9696734

Sequences

>g1322.t1 Gene=g1322 Length=2427
ATGGAGACTGTTGGTGAATTCGAATATAATCCGAAGGAGCTGATAGGACATGGTGCATTT
GCAGTTGTTTTTCGAGGCCGTCACAAAAAGAAACACTTTCCAGTTGCTATTAAGAGCATA
ACGAAGAAGAGTCTTGCAAAGTCGCAGAACTTGCTTGGCAAGGAAATTAAAATACTCAAA
GAACTCACAGAACTGCATCATGAGAACGTTGTTGCGTTGCTTGATTGCAAAGAATCGCAA
CATAATGTATATCTTGTCATGGAGTATTGCAATGGTGGTGATTTAGCGGATTATTTAACA
GCCAAAGGCACGCTTAGCGAAGAGACTATAAGATTATTCCTCATACAATTGGCTGGTGCC
ATGAAAGCTCTCTTTGCAAAAGGTATTGTACATCGCGATCTCAAACCTCAGAATATTTTA
TTGAGTCACAATTGTGGCAAAAGTTTACCCGCACCGGCAAATATCACACTGAAAATTGCC
GATTTTGGGTTTGCCAGATTTTTACAAGAAGGAAATATGGCTGCTACTCTTTGCGGATCA
CCAATGTATATGGCACCAGAAGTAATAATGTCACTTCAATATGATGCAAAAGCAGATCTG
TGGTCACTTGGAACTATTGTGTTTCAATGTTTAACTGGAAAAGCACCATTCCAAGCTCAT
ACACCTCAAGAGCTTAAAAATTTCTACGAAAAGAATGCAAATCTTGCTCCAAAAATTCCG
CCAGGTACATCACAAGAACTTCAGAATCTTCTTTTTGGATTACTTCGTCGCAATGCTAAA
GAACGAATGCCATTTGATGTGTTTTTCAATCATCAATTCTTGCAACGTAATCCACCCACA
CCACAACAATCGGCATCAGCCGATTTACCATCACCATACTCCAATCAACCAAAATCAAAT
GCCACAGTGACAACGAAGAATCAACCACCGCAAATGGCGGCGGCAAACAATAACATCAAC
AACAATAATAATAATAACACTAAAATTGTCGAAATAAATGAAATAGAGACAACAGCAGCT
GGCTATGAAAGTATTGGTGATGGTACAAATAATAATAATGAATCAAGCAGTCCCGACAAT
TCTGATGATTTCGTTTTAGTGCCCAATAATTTACCCGTTGTCGATGCACAAGCATATGAC
AGGAAATACAACAAAGCGCCATCCAATTCTAGTCCTCCAAGACCGAGCACTTTACCAATA
TCGGAACCAAAACCTGTGCCCACGACAAGAAAACTCTCACGACCACATTCGCCACCAAAA
CTTCAGAGTGCGACGACAGTACCAAGCGGAATTCCACGATCACAACCGATAAATATGAAG
CAATCAAATCGTCGCAATAGTAATTGTAATCTGGACATTAACTCAATTTCACCACCAAGT
GTGCAATTTGCTATTGGCACGCCTCCTTCAGCGTCATCAGCAGCAAATCGTAGACGATCA
ACATCGGGAGGTGATACACCACCAGTTCCACCATCAACATGGCAAATATCACCTTCAGCA
ACTACAAACTTCCATCAATCACCTTCAGCATTAAGAAGATCAGGCACAACGGGCGGTCTC
GGTTGTGCACTGGCAAAACTGCCAACACTTTCAAGTCCAACATTATTAGCTGAAAATAAT
AATAATCCCTTGATTGGAACTCGCGCGTTTACTTTACCTGATATGGGTGCAGCCGCTGGT
GCGACTGGAGCAAATGGTTTCAGTTTACTACACAATGACTCGAAAAATGCTCTTGACGAT
CATCCAATCACATTTTATGCACCTGAATTACCTGCTGAAACTCTATTAGACCGTGAACAT
AATGAAACACTTGCAAAGCTCAATTTCGTACTGGCTCTAACTGACTGCATTTTGGAAGTT
GCAGACTTACGTTGTGCACCATTATCAGCATTAATGTCAGCAAATGAATCACCGACTGTT
CAAAATCTCACTCAACCACACGCGCCAGAACATTGTAAGCGAGCAGAACGATTAATTCTT
TTGATAAGAGCTCTTCAATTATTGTCGAGTGGATTGAACTTAGCATCACAACAATTACAA
GCTGGCACACTAAAACCTTCTAATACAGTCAAAAATGTTTTATCAACAATGAACATGAAA
TACCGTACGACATTAAATGAATCAAAGAAGCTCAACGCTAGTGGCTTGTTGCAGAGAGCA
ACGGCAAATCATATAACAGCTGATAAAATTCTCTATGATCATGCAATACAAATGTGTCAG
ACAGCAGCATTGGATGAACTGTTTGGCAATCCTGAGGACTGTTTCACACGATATCAATCT
GCGCAAATATTGCTCCATTCGCTTGCACAAAAATGTACACATCCGAATGATAAGATGCTA
CTAAGTAAATACAAAGATGCCGTTGAGAAGCGACTTTATATACTTCAAAAACAAGGCTTC
ATTTATTCAACTGATACCGAGGAATAG

>g1322.t1 Gene=g1322 Length=808
METVGEFEYNPKELIGHGAFAVVFRGRHKKKHFPVAIKSITKKSLAKSQNLLGKEIKILK
ELTELHHENVVALLDCKESQHNVYLVMEYCNGGDLADYLTAKGTLSEETIRLFLIQLAGA
MKALFAKGIVHRDLKPQNILLSHNCGKSLPAPANITLKIADFGFARFLQEGNMAATLCGS
PMYMAPEVIMSLQYDAKADLWSLGTIVFQCLTGKAPFQAHTPQELKNFYEKNANLAPKIP
PGTSQELQNLLFGLLRRNAKERMPFDVFFNHQFLQRNPPTPQQSASADLPSPYSNQPKSN
ATVTTKNQPPQMAAANNNINNNNNNNTKIVEINEIETTAAGYESIGDGTNNNNESSSPDN
SDDFVLVPNNLPVVDAQAYDRKYNKAPSNSSPPRPSTLPISEPKPVPTTRKLSRPHSPPK
LQSATTVPSGIPRSQPINMKQSNRRNSNCNLDINSISPPSVQFAIGTPPSASSAANRRRS
TSGGDTPPVPPSTWQISPSATTNFHQSPSALRRSGTTGGLGCALAKLPTLSSPTLLAENN
NNPLIGTRAFTLPDMGAAAGATGANGFSLLHNDSKNALDDHPITFYAPELPAETLLDREH
NETLAKLNFVLALTDCILEVADLRCAPLSALMSANESPTVQNLTQPHAPEHCKRAERLIL
LIRALQLLSSGLNLASQQLQAGTLKPSNTVKNVLSTMNMKYRTTLNESKKLNASGLLQRA
TANHITADKILYDHAIQMCQTAALDELFGNPEDCFTRYQSAQILLHSLAQKCTHPNDKML
LSKYKDAVEKRLYILQKQGFIYSTDTEE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g1322.t1 CDD cd14120 STKc_ULK1_2-like 15 273 0.0
9 g1322.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 1 89 1.4E-28
10 g1322.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 92 343 1.1E-54
8 g1322.t1 Gene3D G3DSA:1.20.58.280 Hypothetical protein 1500032h18. 602 798 9.9E-16
18 g1322.t1 MobiDBLite mobidb-lite consensus disorder prediction 380 443 -
20 g1322.t1 MobiDBLite mobidb-lite consensus disorder prediction 415 443 -
17 g1322.t1 MobiDBLite mobidb-lite consensus disorder prediction 468 515 -
19 g1322.t1 MobiDBLite mobidb-lite consensus disorder prediction 468 514 -
3 g1322.t1 PANTHER PTHR24348:SF18 SERINE/THREONINE-PROTEIN KINASE ULK2 1 319 3.5E-180
5 g1322.t1 PANTHER PTHR24348 SERINE/THREONINE-PROTEIN KINASE UNC-51-RELATED 1 319 3.5E-180
4 g1322.t1 PANTHER PTHR24348:SF18 SERINE/THREONINE-PROTEIN KINASE ULK2 582 796 3.5E-180
6 g1322.t1 PANTHER PTHR24348 SERINE/THREONINE-PROTEIN KINASE UNC-51-RELATED 582 796 3.5E-180
11 g1322.t1 PIRSF PIRSF037369 STPK_unc51 1 370 1.9E-165
12 g1322.t1 PIRSF PIRSF037369 STPK_unc51 278 806 9.6E-111
2 g1322.t1 Pfam PF00069 Protein kinase domain 9 274 4.6E-65
1 g1322.t1 Pfam PF12063 Domain of unknown function (DUF3543) 599 797 6.5E-15
16 g1322.t1 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 15 38 -
15 g1322.t1 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 129 141 -
21 g1322.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 9 274 48.499
14 g1322.t1 SMART SM00220 serkin_6 9 274 6.9E-86
7 g1322.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 9 275 8.36E-83

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:0005524 ATP binding MF
GO:0004674 protein serine/threonine kinase activity MF
GO:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation BP

KEGG

Orthology

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