Gene loci information

Transcript annotation

  • This transcript has been annotated as Mitogen-activated protein kinase kinase kinase.

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 g11582 g11582.t4 isoform g11582.t4 17320732 17322697
chr_1 g11582 g11582.t4 exon g11582.t4.exon1 17320732 17320926
chr_1 g11582 g11582.t4 cds g11582.t4.CDS1 17320732 17320926
chr_1 g11582 g11582.t4 exon g11582.t4.exon2 17321241 17321416
chr_1 g11582 g11582.t4 cds g11582.t4.CDS2 17321241 17321416
chr_1 g11582 g11582.t4 exon g11582.t4.exon3 17321482 17321648
chr_1 g11582 g11582.t4 cds g11582.t4.CDS3 17321482 17321648
chr_1 g11582 g11582.t4 exon g11582.t4.exon4 17321714 17322242
chr_1 g11582 g11582.t4 cds g11582.t4.CDS4 17321714 17322242
chr_1 g11582 g11582.t4 exon g11582.t4.exon5 17322307 17322497
chr_1 g11582 g11582.t4 cds g11582.t4.CDS5 17322307 17322497
chr_1 g11582 g11582.t4 exon g11582.t4.exon6 17322567 17322697
chr_1 g11582 g11582.t4 cds g11582.t4.CDS6 17322567 17322697
chr_1 g11582 g11582.t4 TSS g11582.t4 17323103 17323103
chr_1 g11582 g11582.t4 TTS g11582.t4 NA NA

Sequences

>g11582.t4 Gene=g11582 Length=1389
ATGTCCGAAATAAATAATGAACTAGTTTATGGAAACTATTCGCTTCTTGACAATCATCAA
GAGTCACCTCTCTATACTGCGAAATATGACTATTCAGCACAAGGTGAAGATGAATTGGAT
TTAAAAGTCGGTCAAATTGTATGGGTTTTATCAAAAGATGAATCAATATCAGGAGATTAT
GGTTGGTGGACTGGAAAAATTGGTGATCGAGTTGGAATATTTCCTGCAAATTATGTTACA
AATGACGATTTAATGCTAAAAGATGCACATCCTAGTGAAATCGATTACGATGAATTGGAT
GTAAAAGAAGTTATTGGAGCTGGGGGTTTTGGTGAAGTAAAGAGAGCTTTTTTTGCTGAT
GATTTAGTTGCTGTTAAAGAAGCTCGTCATAATCCGGAACTTGATTATAATGTAACACGA
CAAAATGTTTTACAAGAAGCAAAGCTTTTTTGGACTCTTAAACATCCAAATATTGTAACA
CTTCGTGGAGTTTGTCTGAAACCTCCAAAATTTTGTCTTGTCATGGAATATGCAAGAGGT
GGATCTTTAAATAGAATACTGTCGTCTAGTAGAAGAATTCCACCTGATGTTCTTATTGAT
TGGGCTATACAAATCTGTCGAGGAATGACTTATCTTCATAATGGCGCACCTATATCTGTA
ATTCATCGCGATTTAAAAAGTTCAAATGTACTAATAAGTGAATCAATTGATGACGGTGAT
TTACGAGGAAAAACATTAAAAATAACCGATTTTGGTTTAGCTAGAGAAGCATATAACACA
ACCAGAATGTCAGCAGCCGGAACTTATGCTTGGATGCCTCCTGAAGTTATTAAAGCTGGC
ACATATTCTAAAGCATCTGATGTTTGGAGTTATGGTGTGCTTTTATGGGAGCTTTTAACG
GGAGAGATTCCCTATAAAGGATTCGATTCACTTTCCGTAGCATATGGTGTAGCTATCAAT
ACTTTGTCGCTTCCAATTCCAAAAACATGTCCTCAGGCATGGGGAAATTTGATGAAATCA
TGCTGGGAAATAGATTCACACAAAAGGCCACAATTCAAATCAATTTTAAGGGATTTAGAA
GTTATTGCTGAATCTGGATTCAAACAGACTCCACATGAGTCTTTTCACAATATGCAAGAC
TGTTGGAAAAAAGAAATTGCAGAAGTTCTTCATGAGTTACGCTTAAAAGAAAAGGAACTG
CGTTGCAAAGAAGAAGAACTTACACGTGTACAGCAGCAGCAAAAAAGAGAGCAAGAAAAC
CTTATGAAATTAGCACAAGAATTGAAAAATAGAGAACTTGATTTGTTAGGACGAGAGTTA
AAAATTATAATGAGTAATGCACCAACACCCCATAAGAGACGCAACAAAATAGGAACTTCC
AAATTAAAA

>g11582.t4 Gene=g11582 Length=463
MSEINNELVYGNYSLLDNHQESPLYTAKYDYSAQGEDELDLKVGQIVWVLSKDESISGDY
GWWTGKIGDRVGIFPANYVTNDDLMLKDAHPSEIDYDELDVKEVIGAGGFGEVKRAFFAD
DLVAVKEARHNPELDYNVTRQNVLQEAKLFWTLKHPNIVTLRGVCLKPPKFCLVMEYARG
GSLNRILSSSRRIPPDVLIDWAIQICRGMTYLHNGAPISVIHRDLKSSNVLISESIDDGD
LRGKTLKITDFGLAREAYNTTRMSAAGTYAWMPPEVIKAGTYSKASDVWSYGVLLWELLT
GEIPYKGFDSLSVAYGVAINTLSLPIPKTCPQAWGNLMKSCWEIDSHKRPQFKSILRDLE
VIAESGFKQTPHESFHNMQDCWKKEIAEVLHELRLKEKELRCKEEELTRVQQQQKREQEN
LMKLAQELKNRELDLLGRELKIIMSNAPTPHKRRNKIGTSKLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g11582.t4 CDD cd14061 STKc_MLK 104 362 8.01401E-175
18 g11582.t4 Coils Coil Coil 386 434 -
16 g11582.t4 Gene3D G3DSA:2.30.30.40 SH3 Domains 20 83 2.2E-20
15 g11582.t4 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 90 179 1.3E-26
17 g11582.t4 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 180 415 1.8E-68
3 g11582.t4 PANTHER PTHR44329:SF39 MITOGEN-ACTIVATED PROTEIN KINASE KINASE KINASE 10 22 445 1.4E-196
4 g11582.t4 PANTHER PTHR44329 SERINE/THREONINE-PROTEIN KINASE TNNI3K-RELATED 22 445 1.4E-196
9 g11582.t4 PRINTS PR00452 SH3 domain signature 23 33 8.6E-8
11 g11582.t4 PRINTS PR00452 SH3 domain signature 37 52 8.6E-8
12 g11582.t4 PRINTS PR00452 SH3 domain signature 59 68 8.6E-8
10 g11582.t4 PRINTS PR00452 SH3 domain signature 70 82 8.6E-8
8 g11582.t4 PRINTS PR00109 Tyrosine kinase catalytic domain signature 175 188 2.8E-14
7 g11582.t4 PRINTS PR00109 Tyrosine kinase catalytic domain signature 214 232 2.8E-14
6 g11582.t4 PRINTS PR00109 Tyrosine kinase catalytic domain signature 286 308 2.8E-14
5 g11582.t4 PRINTS PR00109 Tyrosine kinase catalytic domain signature 330 352 2.8E-14
1 g11582.t4 Pfam PF00018 SH3 domain 27 76 3.0E-12
2 g11582.t4 Pfam PF07714 Protein tyrosine and serine/threonine kinase 100 359 6.2E-65
23 g11582.t4 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 105 126 -
22 g11582.t4 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 220 232 -
24 g11582.t4 ProSiteProfiles PS50002 Src homology 3 (SH3) domain profile. 20 84 24.882
25 g11582.t4 ProSiteProfiles PS50011 Protein kinase domain profile. 99 375 43.637
20 g11582.t4 SMART SM00326 SH3_2 23 83 1.1E-18
21 g11582.t4 SMART SM00220 serkin_6 99 362 1.7E-65
14 g11582.t4 SUPERFAMILY SSF50044 SH3-domain 22 84 5.25E-20
13 g11582.t4 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 84 359 1.35E-76

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:0004709 MAP kinase kinase kinase activity MF
GO:0005524 ATP binding MF
GO:0005515 protein binding 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