Gene loci information

Transcript annotation

  • This transcript has been annotated as MAP kinase-activated protein kinase 2.

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 g11439 g11439.t7 TTS g11439.t7 16249170 16249170
chr_1 g11439 g11439.t7 isoform g11439.t7 16249383 16251899
chr_1 g11439 g11439.t7 exon g11439.t7.exon1 16249383 16249551
chr_1 g11439 g11439.t7 cds g11439.t7.CDS1 16249383 16249551
chr_1 g11439 g11439.t7 exon g11439.t7.exon2 16249611 16249836
chr_1 g11439 g11439.t7 cds g11439.t7.CDS2 16249611 16249836
chr_1 g11439 g11439.t7 exon g11439.t7.exon3 16249900 16249988
chr_1 g11439 g11439.t7 cds g11439.t7.CDS3 16249900 16249988
chr_1 g11439 g11439.t7 exon g11439.t7.exon4 16250046 16250156
chr_1 g11439 g11439.t7 cds g11439.t7.CDS4 16250046 16250156
chr_1 g11439 g11439.t7 exon g11439.t7.exon5 16250677 16250808
chr_1 g11439 g11439.t7 cds g11439.t7.CDS5 16250677 16250808
chr_1 g11439 g11439.t7 exon g11439.t7.exon6 16251190 16251250
chr_1 g11439 g11439.t7 cds g11439.t7.CDS6 16251190 16251250
chr_1 g11439 g11439.t7 exon g11439.t7.exon7 16251311 16251379
chr_1 g11439 g11439.t7 cds g11439.t7.CDS7 16251311 16251379
chr_1 g11439 g11439.t7 exon g11439.t7.exon8 16251437 16251518
chr_1 g11439 g11439.t7 cds g11439.t7.CDS8 16251437 16251518
chr_1 g11439 g11439.t7 exon g11439.t7.exon9 16251585 16251646
chr_1 g11439 g11439.t7 cds g11439.t7.CDS9 16251585 16251646
chr_1 g11439 g11439.t7 exon g11439.t7.exon10 16251773 16251899
chr_1 g11439 g11439.t7 cds g11439.t7.CDS10 16251773 16251899
chr_1 g11439 g11439.t7 TSS g11439.t7 16252138 16252138

Sequences

>g11439.t7 Gene=g11439 Length=1128
ATGTTTAAAATTAATACAAATACGACTAATCCACCTCAAATGAGTACATCACAGAATTTC
ACTTTGGTTCCGAAAACAACAAGAATCACTGACGAATATGAGATATCGAACAATGTTTTG
GGATTAGGCATAAATGGAAAAGTTGTGCAATGCACAAGAAAAAGTGATAATACTAAATAC
GCATTGAAGGTACTACATGATAATAGCAAAGCACGGAGAGAAGTGGAATTGCATTGGCGT
GTTAGTGGTTGTCGACATATTGTGAATATTGTTGATGTTTTTGAGAACACTTATGGTGGC
ACAAAATGTTTGTTAGTTGTAATGGAACTCATGACTGGTGGTGAGCTCTTCAATCGTATC
CAAGAACGTCAAGATGGACCTTTTACTGAACGTGAAGCTGCACAAATCATGCATGAGATA
TGCATTGCATTGAAATATCTTCATGATCGAAATATTGCTCATAGAGATTTAAAGCCAGAA
AATCTACTTTACTCAAGTCAAGATTGTGATGCGATTATTAAATTAACTGGTGATTTTGGA
TTTGCCAAAGAGACACACATAAAAGACACGCTCCAGACACCTTGTTATACTCCTTATTAT
GCTGCTCCAGAAATTCTAGGACCAGAAAAATACGATCGTTCTTGTGACTTATGGTCGTTG
GGAGTGATAATGTATATTCTGCTTTGCGGTTTCCCTCCATTTTATAGCAACCACGGTCTT
GCCATTTCACCAGGTATGAAAAATCGCATTCGAACTGGTCAATATGATTTTCCATTGCCC
GAGTGGCAAAACGTCAGTAATGATGCTAAAGATTTGATTCGAGGAATGTTGAATGTAAAC
CCCAATGAACGACTTACTATTGACGAAGTAATGAAAAATAATTGGATCGCACAATATACT
AACGTTCCCCAAACACCTTTACACACAAATCGTGTCTTGAAAGAAGAAGAACAACAATGG
CCTGAAGTACAAGAAGAAATGAATCGTTCACTTGCTAGCATGAGAGTTGATTATGGCTTA
GTACTCAAAAACATTGATAACTCGAGTAATTCACTTTTAAATAAACGCAAAAAAGCAAAA
GGCACACAGGGTGAAGCTTCAACAACGAAATTTTCAACACAGTTTTAA

>g11439.t7 Gene=g11439 Length=375
MFKINTNTTNPPQMSTSQNFTLVPKTTRITDEYEISNNVLGLGINGKVVQCTRKSDNTKY
ALKVLHDNSKARREVELHWRVSGCRHIVNIVDVFENTYGGTKCLLVVMELMTGGELFNRI
QERQDGPFTEREAAQIMHEICIALKYLHDRNIAHRDLKPENLLYSSQDCDAIIKLTGDFG
FAKETHIKDTLQTPCYTPYYAAPEILGPEKYDRSCDLWSLGVIMYILLCGFPPFYSNHGL
AISPGMKNRIRTGQYDFPLPEWQNVSNDAKDLIRGMLNVNPNERLTIDEVMKNNWIAQYT
NVPQTPLHTNRVLKEEEQQWPEVQEEMNRSLASMRVDYGLVLKNIDNSSNSLLNKRKKAK
GTQGEASTTKFSTQF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g11439.t7 CDD cd14089 STKc_MAPKAPK 32 295 0.0
6 g11439.t7 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 16 111 7.0E-40
7 g11439.t7 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 112 300 4.0E-61
5 g11439.t7 Gene3D G3DSA:4.10.1170.10 MAP kinase activated protein kinase 2 304 369 3.6E-25
12 g11439.t7 MobiDBLite mobidb-lite consensus disorder prediction 353 375 -
2 g11439.t7 PANTHER PTHR24349 SERINE/THREONINE-PROTEIN KINASE 11 367 6.5E-159
3 g11439.t7 PANTHER PTHR24349:SF63 MAP KINASE-ACTIVATED PROTEIN KINASE 2 11 367 6.5E-159
1 g11439.t7 Pfam PF00069 Protein kinase domain 38 296 9.6E-66
10 g11439.t7 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 40 63 -
9 g11439.t7 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 152 164 -
13 g11439.t7 ProSiteProfiles PS50011 Protein kinase domain profile. 34 296 39.085
11 g11439.t7 SMART SM00220 serkin_6 34 296 1.4E-86
4 g11439.t7 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 22 336 2.32E-82

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: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