Gene loci information

Transcript annotation

  • This transcript has been annotated as RAC serine/threonine-protein 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 g11018 g11018.t4 isoform g11018.t4 13422172 13424576
chr_1 g11018 g11018.t4 exon g11018.t4.exon1 13422172 13422234
chr_1 g11018 g11018.t4 cds g11018.t4.CDS1 13422173 13422234
chr_1 g11018 g11018.t4 exon g11018.t4.exon2 13422294 13422751
chr_1 g11018 g11018.t4 cds g11018.t4.CDS2 13422294 13422751
chr_1 g11018 g11018.t4 exon g11018.t4.exon3 13422811 13422975
chr_1 g11018 g11018.t4 cds g11018.t4.CDS3 13422811 13422975
chr_1 g11018 g11018.t4 exon g11018.t4.exon4 13423039 13423190
chr_1 g11018 g11018.t4 cds g11018.t4.CDS4 13423039 13423190
chr_1 g11018 g11018.t4 exon g11018.t4.exon5 13423248 13423445
chr_1 g11018 g11018.t4 cds g11018.t4.CDS5 13423248 13423445
chr_1 g11018 g11018.t4 exon g11018.t4.exon6 13423509 13423668
chr_1 g11018 g11018.t4 cds g11018.t4.CDS6 13423509 13423668
chr_1 g11018 g11018.t4 exon g11018.t4.exon7 13424203 13424576
chr_1 g11018 g11018.t4 cds g11018.t4.CDS7 13424203 13424576
chr_1 g11018 g11018.t4 TSS g11018.t4 NA NA
chr_1 g11018 g11018.t4 TTS g11018.t4 NA NA

Sequences

>g11018.t4 Gene=g11018 Length=1570
ATGTCACTTGCATCAACATCAATTGATTCAGGACAATTGCCTGATCTTGTATCACATAAT
ATTGACGTCAACTCGCGTCAAATCATTAAAGAAGGATGGTTATTTAAACGTGGTGAACAT
ATAAAAAATTGGAGATCGCGCTATTTTATTTTACGATCAGACGGCTCACTTGTAGGCTAT
AAGAATCGACCAGACGCTCAAATTCCAACTGAGCCGTCCAATAATTTTACTGTTGCACGA
TGTCAAATCATGTCAGTTGATCGACCAAGACCTTATACATTTATAATCAGAGGCCTACAA
TGGACCACTGTCATCGAGCGAATGTTTTATGTCGAGACAGAGCATGAGAGAACCCAATGG
GTTGAAGCTATACGTGTTGCAAACTGTTTGAGCGAAATTGATCAACAAGAAGAGCCAGTA
GCAGAATTGAATGATAATGATGATGTAGAAATGGCATCAATTGCGGAAGAAGAAGAATTG
GATGAAAAACTCTCTCATCAAGGAACATCGACAGGAAGTGGAAAGAAGAAAATTACATTA
GAGAATTTTGAATTTTTAAAAGTGCTTGGACGAGGGTCTTATGGCAAAGTAATTTTATGT
CGGGAAAAATCTACAGCCAAGTTATATGCGATAAAAATCCTTAAAAAGGAAGTCATCATA
CAAAAGAGTGAAGTCGAACACACGATGGCTGAAAATCGAGTTTTACGCAAGACAAATCAT
CCATTTTTAATTTCATTGCGTTATTCATTTCGCACTAATGAGCGACTATGTTTTGTCATG
CAGTATGTCAACGGCGGTGAATTATATTTTCATCTGAGAAATGAAAAAATATTTTCAGAA
GATCGTACTCGATTTTATGGAGCAGAAATCATTTCAGCACTTGGATATTTGCATTCGCAC
AACATTGTTTATCGTGATGTAAAATTAGAGAATCTTTTACTTGATAAAGATGGTCATATA
AAAATTGCAGATTTTGGTTTATGTAAGGAAGATATTACATATGATAGAACAACGAATACA
TTTTGTGGAACACCTGAATATTTGGCACCAGAAATGTTAGAAGACAACGATTATGGATTA
GCAGTCGATTGGTGGGGCACGGGTGTCGTCATGTACGAAATGATGTGTGGTCAATTACCG
TTTGATAATCGTGACCATGACATTTTATTCAAGCAAATTATGATGGATGATGTAAAGTTT
CGACGCCCTGTTTCTAGTGAAGCAAAATCACTTTTAACTGGATTACTTGAAAAAAGTCCC
CAAAAGCGCCTCGGTGGTGGACCAGATGATGTTCGAGAAATAATGGTGCATCCTTTCTTT
GCTAGCATCAATTGGTATGATTTAGTGAATAAGAAAATTATTCCACCGTTCAAGCCGCAA
GTTACCTCAGATACTGATACACGCTATTTCGATTCTGAATTTACGGGTGAGAGTGTCGAA
TTGACACCGCCTGATCCAGCTGTTCAATTACAATCAATTCAGGAAGAACCTCATTTTTCT
CAAGTAATTCAGTTATCAAGCAATTGCTTCATTTATGAGCAACAATTCTGCATTAGTTTC
ATTACCATAG

>g11018.t4 Gene=g11018 Length=523
MSLASTSIDSGQLPDLVSHNIDVNSRQIIKEGWLFKRGEHIKNWRSRYFILRSDGSLVGY
KNRPDAQIPTEPSNNFTVARCQIMSVDRPRPYTFIIRGLQWTTVIERMFYVETEHERTQW
VEAIRVANCLSEIDQQEEPVAELNDNDDVEMASIAEEEELDEKLSHQGTSTGSGKKKITL
ENFEFLKVLGRGSYGKVILCREKSTAKLYAIKILKKEVIIQKSEVEHTMAENRVLRKTNH
PFLISLRYSFRTNERLCFVMQYVNGGELYFHLRNEKIFSEDRTRFYGAEIISALGYLHSH
NIVYRDVKLENLLLDKDGHIKIADFGLCKEDITYDRTTNTFCGTPEYLAPEMLEDNDYGL
AVDWWGTGVVMYEMMCGQLPFDNRDHDILFKQIMMDDVKFRRPVSSEAKSLLTGLLEKSP
QKRLGGGPDDVREIMVHPFFASINWYDLVNKKIIPPFKPQVTSDTDTRYFDSEFTGESVE
LTPPDPAVQLQSIQEEPHFSQVIQLSSNCFIYEQQFCISFITI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g11018.t4 CDD cd01241 PH_PKB 26 125 6.72034E-58
12 g11018.t4 CDD cd05571 STKc_PKB 187 501 0.0
9 g11018.t4 Gene3D G3DSA:2.30.29.30 - 22 139 1.4E-30
8 g11018.t4 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 181 477 2.7E-132
10 g11018.t4 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 267 461 2.7E-132
4 g11018.t4 PANTHER PTHR24351:SF209 NON-SPECIFIC SERINE/THREONINE PROTEIN KINASE 29 498 1.4E-235
5 g11018.t4 PANTHER PTHR24351 RIBOSOMAL PROTEIN S6 KINASE 29 498 1.4E-235
2 g11018.t4 Pfam PF00169 PH domain 29 125 5.5E-15
3 g11018.t4 Pfam PF00069 Protein kinase domain 183 440 4.4E-74
1 g11018.t4 Pfam PF00433 Protein kinase C terminal domain 461 487 1.7E-7
14 g11018.t4 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 189 212 -
13 g11018.t4 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 302 314 -
20 g11018.t4 ProSiteProfiles PS50003 PH domain profile. 27 129 16.139
19 g11018.t4 ProSiteProfiles PS50011 Protein kinase domain profile. 183 440 48.781
18 g11018.t4 ProSiteProfiles PS51285 AGC-kinase C-terminal domain profile. 441 523 13.223
16 g11018.t4 SMART SM00233 PH_update 28 131 4.0E-13
17 g11018.t4 SMART SM00220 serkin_6 183 440 1.8E-105
15 g11018.t4 SMART SM00133 pkinase_C_6 441 503 1.8E-15
6 g11018.t4 SUPERFAMILY SSF50729 PH domain-like 24 127 1.02E-22
7 g11018.t4 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 178 501 1.35E-96

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. There were no conditions that were differentially expressed