Gene loci information

Transcript annotation

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

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 g8463 g8463.t1 TTS g8463.t1 30841520 30841520
chr_2 g8463 g8463.t1 isoform g8463.t1 30841877 30843991
chr_2 g8463 g8463.t1 exon g8463.t1.exon1 30841877 30842077
chr_2 g8463 g8463.t1 cds g8463.t1.CDS1 30841877 30842077
chr_2 g8463 g8463.t1 exon g8463.t1.exon2 30842148 30842271
chr_2 g8463 g8463.t1 cds g8463.t1.CDS2 30842148 30842271
chr_2 g8463 g8463.t1 exon g8463.t1.exon3 30842401 30842812
chr_2 g8463 g8463.t1 cds g8463.t1.CDS3 30842401 30842812
chr_2 g8463 g8463.t1 exon g8463.t1.exon4 30842887 30843991
chr_2 g8463 g8463.t1 cds g8463.t1.CDS4 30842887 30843991
chr_2 g8463 g8463.t1 TSS g8463.t1 30844256 30844256

Sequences

>g8463.t1 Gene=g8463 Length=1842
ATGTTTTCTAAAAAGAAAAAGAAACCGCAAATTTCACTTCCGTCCAATTTTGAACATCGT
GTACATACAGGATTTGACAAAAAGGAGGGAAAATATATTGGATTACCGCTACAATGGGCA
TCAATTGTGGGAAATAATCAAATTTTAAAAAGCAGCAATCGGCCGCTGCCATTAGTTGAT
CCATCTGCAATTACTCCCACTGAAATTCTAGATTTAAAGACAATTGTACGACCTCAAAGT
AGTTTAGCAACATCAATTGGTGACAGTTCTATGTCGTCTTCCTCACTCGTTGGTCCAGAA
TTACACAACAATTCTTATAATGGCTTTAATCTACCGAAAATTTCACATGTAGCACGCTCA
AATTCATTACGATGTTCAAGTCCGCCTCGTCTTTATCAACGTGAACCTCAAATTCCTAAT
TCAGTGCAAGAAGAAACAACACAACAACAGCAACCTCATCCTATGATACCTAATCATCAT
CAACAGCAGCAGCAACAACAACAATATCCTTTAGTCCATCAAATTGATCCAAATATCAGA
AAACAATTACAGCCTCAACCTCAGCCTCATTCAGCACCACTTAATGTTCAATATAATTCC
ATGCATCAAATTAATAACAACAATAATAATTCTATTGCATTTAATGGTAAACAACAACAA
ATGACGCAGCAGCAGCAACAGGGAGGCGTTTATGGCAATCTACATCATCAACAACAACAG
CAGTTGCCACCAACTTCACATATGCAAGGACCTTTGCAACTTCAACAGCATCACTTCCAG
CAACATCAGCAGCAGCAACAACATCCTAATTCTGCCCCACTTCGATTACAGCAAGATATT
GCAAATAATAATCCTTCAAGAGGATCAGTCACAAGTAGTGCCAATTCAACAGGAGGTGGT
GTCCATAATCCTCCTTCAGTTGCAAATAGTGCAGCTTTAAATGGAGCTAATAGTAAACAA
GAGCAGCGACTTACACATGAACAATTTCGTGCAGCTTTACAAATGGTCGTTTCACAAGGC
GATCCAAGAGAAAATCTTGAAAATTTCATTAAAATTGGCGAAGGTTCAACTGGAACAGTT
TGGATTGCGATGGAAAAGAGTACGAAGCGTAAAGTTGCCGTTAAGAAAATGGATTTGCGC
AAGCAACAACGACGTGAACTGCTTTTTAATGAAGTTGTCATTCTAAGAGATTATCATCAT
CCGAATATTGTTGAGACTTACAATAGTTACTTGGTAAATGATGAGCTTTGGGTTGTTATG
GAATATCTTGAAGGTGGTGCATTAACTGATATTGTTACACATGAGAGAATGGATGAAGAA
CAAATTGCAACTGTATGTAAGCAAGTGTTGAAAGCTTTAGCCTATCTTCACTCGCAGGGT
GTCATTCATCGTGACATTAAATCAGATTCTATTCTATTAGCGTCTGATGGTCGTGTGAAA
TTGAGTGATTTTGGATTTTGTGCTCAAGTTTCTCAAGAATTACCGAAGAGAAAATCGCTT
GTTGGAACTCCTTATTGGATGTCACCAGAAGTTATTTCACGACTTCTTTATGGACCGGAA
GTTGATATTTGGTCACTTGGTATTATGGTAATTGAAATGATTGACGCGGAGCCACCATTT
TTCAATGAACCACCTTTACAAGCAATGAGAAGAATTCGAGATATGCCACCACCAACACCG
AAAAATGCACACAAAGTTTCACCTCGATTGCGTCGTTTTCTCGATCGAATGCTTGTAAGA
GATCCAGCACAACGAGCTACAGCTGCAGAGTTGTTATCCGATCCATTCCTACTTGTCGCT
GGACCACCTTCAATTTTAGTCCCAAGAATGAAAGGTTTCTAA

>g8463.t1 Gene=g8463 Length=613
MFSKKKKKPQISLPSNFEHRVHTGFDKKEGKYIGLPLQWASIVGNNQILKSSNRPLPLVD
PSAITPTEILDLKTIVRPQSSLATSIGDSSMSSSSLVGPELHNNSYNGFNLPKISHVARS
NSLRCSSPPRLYQREPQIPNSVQEETTQQQQPHPMIPNHHQQQQQQQQYPLVHQIDPNIR
KQLQPQPQPHSAPLNVQYNSMHQINNNNNNSIAFNGKQQQMTQQQQQGGVYGNLHHQQQQ
QLPPTSHMQGPLQLQQHHFQQHQQQQQHPNSAPLRLQQDIANNNPSRGSVTSSANSTGGG
VHNPPSVANSAALNGANSKQEQRLTHEQFRAALQMVVSQGDPRENLENFIKIGEGSTGTV
WIAMEKSTKRKVAVKKMDLRKQQRRELLFNEVVILRDYHHPNIVETYNSYLVNDELWVVM
EYLEGGALTDIVTHERMDEEQIATVCKQVLKALAYLHSQGVIHRDIKSDSILLASDGRVK
LSDFGFCAQVSQELPKRKSLVGTPYWMSPEVISRLLYGPEVDIWSLGIMVIEMIDAEPPF
FNEPPLQAMRRIRDMPPPTPKNAHKVSPRLRRFLDRMLVRDPAQRATAAELLSDPFLLVA
GPPSILVPRMKGF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g8463.t1 CDD cd01093 CRIB_PAK_like 9 54 4.16403E-16
11 g8463.t1 CDD cd06648 STKc_PAK_II 338 598 0.0
10 g8463.t1 Gene3D G3DSA:3.90.810.10 - 4 48 2.3E-15
8 g8463.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 295 422 5.3E-43
9 g8463.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 423 613 4.5E-71
16 g8463.t1 MobiDBLite mobidb-lite consensus disorder prediction 133 169 -
15 g8463.t1 MobiDBLite mobidb-lite consensus disorder prediction 217 272 -
4 g8463.t1 PANTHER PTHR48015:SF27 SERINE/THREONINE-PROTEIN KINASE PAK 5 1 118 4.3E-218
6 g8463.t1 PANTHER PTHR48015 SERINE/THREONINE-PROTEIN KINASE TAO 1 118 4.3E-218
3 g8463.t1 PANTHER PTHR48015:SF27 SERINE/THREONINE-PROTEIN KINASE PAK 5 315 612 4.3E-218
5 g8463.t1 PANTHER PTHR48015 SERINE/THREONINE-PROTEIN KINASE TAO 315 612 4.3E-218
1 g8463.t1 Pfam PF00786 P21-Rho-binding domain 10 48 1.3E-10
2 g8463.t1 Pfam PF00069 Protein kinase domain 349 597 5.4E-69
13 g8463.t1 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 352 376 -
17 g8463.t1 ProSiteProfiles PS50108 CRIB domain profile. 11 24 8.855
18 g8463.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 346 597 51.17
14 g8463.t1 SMART SM00285 PBD_5 11 46 1.4E-11
7 g8463.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 341 598 4.72E-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