Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine/threonine-protein kinase D1.

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 g1561 g1561.t1 TTS g1561.t1 11821345 11821345
chr_3 g1561 g1561.t1 isoform g1561.t1 11821521 11824738
chr_3 g1561 g1561.t1 exon g1561.t1.exon1 11821521 11821924
chr_3 g1561 g1561.t1 cds g1561.t1.CDS1 11821521 11821924
chr_3 g1561 g1561.t1 exon g1561.t1.exon2 11821984 11822099
chr_3 g1561 g1561.t1 cds g1561.t1.CDS2 11821984 11822099
chr_3 g1561 g1561.t1 exon g1561.t1.exon3 11822159 11822792
chr_3 g1561 g1561.t1 cds g1561.t1.CDS3 11822159 11822792
chr_3 g1561 g1561.t1 exon g1561.t1.exon4 11822854 11823116
chr_3 g1561 g1561.t1 cds g1561.t1.CDS4 11822854 11823116
chr_3 g1561 g1561.t1 exon g1561.t1.exon5 11823193 11823710
chr_3 g1561 g1561.t1 cds g1561.t1.CDS5 11823193 11823710
chr_3 g1561 g1561.t1 exon g1561.t1.exon6 11824159 11824325
chr_3 g1561 g1561.t1 cds g1561.t1.CDS6 11824159 11824325
chr_3 g1561 g1561.t1 exon g1561.t1.exon7 11824400 11824543
chr_3 g1561 g1561.t1 cds g1561.t1.CDS7 11824400 11824543
chr_3 g1561 g1561.t1 exon g1561.t1.exon8 11824675 11824738
chr_3 g1561 g1561.t1 cds g1561.t1.CDS8 11824675 11824738
chr_3 g1561 g1561.t1 TSS g1561.t1 NA NA

Sequences

>g1561.t1 Gene=g1561 Length=2310
ATGATTAATTCGCCAGCAGAGATTACTGATGAGACACTTGTAGAGATTGTGCTGACGGCT
AACCCTGTCGTTTATAATTCTCTCGACAATGAGATTCCATTGATACGACCGCACGCTCTT
GTCGTTCATTCTTATAAGACGCCGACCTTTTGTGACTTCTGTGGTGAGATGTTATTTGGC
TTAGTTAGACAAGGATTAAAATGTGAAGGTTGCCAGCAAAATTATCATAAACGTTGTGTA
GTTAAGGTACCAAATAATTGCAGTCGTATAGATGTAACGAGAAATCGAGCAAATCAAACT
CGAACAGCTTCAGGAAATTCAAATCATTCAGGTTCTGTTGATGAACAGCAATCACCAATT
GGTGGTTCTTCATTGCAAGTTCCCAATGCACGCACAAATCGTTCAACATCGAATGGCAGT
CGTACGGGAGCAATAGCAAATCAGCGAATTAAAATTCCACATACATTTCAAGTTCATACT
TATACACGACCGACGATATGTCAGTATTGTAAGAAACTCCTGAGAGGACTTTTTAAACAG
GGCATGCAATGTAACGACTGCCATTACAATGTTCACAAGAAATGCGTTGAATTTGTGCCA
AAGGATTGTGAAAGTAATTTCCATAATGTAGACGTTATGAATGATGCTGCTAGCTCAAAC
TCAACAAATGAACGTGACTCGTTATATAAAGAGGAGAATGAAGATAGTGACTTTGATGAG
GCTGCATTCAATAACAACTTTAATGCTGCGAATCGTGAAATTCTTCCTCCTCCTATTATT
CCAACACCGATCAGTAATAATAATAACAATAACAATAAAGTTAATGGCAGTGTAAAATTA
GAAGTTATTGACGATAGTTATGATTCAATTTCGGAGCAATCGAGACATTCTGATGCTTCT
TCATCACCAAGCGCAAACATTCCACTACAGAGAATTGTGCAATCAGTGAAGCATACAAAG
AAACGTGATGGAAAAGCGATGAAAGAAGGATGGTTAGTGCATTTTACAAACAAAGATAAA
ACCATTAAGCGACACTATTGGCGATTAGATTCGAAAGCAATCACGATGTTTGTATCAGAT
CAAGGTAGCAAGTATTATAGAGAAATTCCATTAAATGAAATTTTAACTATCGATACAGCT
CGAAACATGCAATCAGATGTTCTTCATTGTTTCGAAATAAGAACAGCAAATGTAGATTAT
TTCGTAGGACAAGATCCAATTTATAATCTTAAGGAAAATGAGGGCTTGCTCACATTGCCT
CCACCCGATTCCGGTATTGGTGCATATCTAGCAAAAAGTTGGGAAACTGCTATTCGTCAA
GCTCTTATGCCAGTCACTAATTCATCAACCTCATCATCATCGGAACAAACGAGTGAACCC
GAAGAAAGAATCACAGACATTTCTCAACTTTATCAAATCTTTCCTGATGAAGTGCTCGGT
TCAGGTCAATTTGGTATTGTGTATGGTGGCGTGCATAGAAAAAGTCATCGACCTGTCGCT
ATTAAAGTTATTGATAAACTTCGCTTCCCAACAAAACAAGAAGCACAGCTCAAAAATGAA
GTTGCAATTCTTCAGAATCTTCAACATCCTGGCGTTGTGAATCTCGAGCGAATGTTTGAG
ACGCCTGAAAGAATTTTTGTTGTCATGGAAAAGCTAAAGGGCGATATGTTAGAAATGATT
TTATCCGTTGGTCGACTCAATGAGCGCGTTACAAAATTCCTCATTACACAAATTCTTGTT
GCTCTTAAACATCTTCATAGTAGAAATATTTGCCATTGTGATATGAAACCAGAAAATGTG
CTTTTAAGTTCTGATGCTGAATTTCCTCAAATTAAATTATGTGACTTTGGTTTTGCTCGA
ATAATCGGTGAAAAATCATTCCGTCGTTCAGTTGTAGGCACACCAGCTTATTTAGCACCC
GAGGTACTTCGTAACAAAGGCTATAATCGTAGTCTTGATATGTGGTCAGTTGGTGTAATA
ATTTATGTCAGTCTAAGTGGAACTTTTCCTTTTAATGAAGATGAAGATATTAATGATCAA
ATTCAAAATGCTGCTTTTATGTATCCGCCTAATCCATGGAAAGAAATTTCAAGTTCTGCC
ATTGATCTTATAAATAATTTATTACAAGTAAAACAACGAAAACGTTACACGGTTGATAAA
AGTTTGATGCATCCGTGGCTTCAAGATCCTGTAACATGGCATGATTTGAGGAAATTAGAA
GCACAAGTTGGCGTGCGTTATCTCACTCATGAATCGGATGACGGTAGATATGAAGAATGC
GATGAAAATAATAGTCCAACTAACGCTTGA

>g1561.t1 Gene=g1561 Length=769
MINSPAEITDETLVEIVLTANPVVYNSLDNEIPLIRPHALVVHSYKTPTFCDFCGEMLFG
LVRQGLKCEGCQQNYHKRCVVKVPNNCSRIDVTRNRANQTRTASGNSNHSGSVDEQQSPI
GGSSLQVPNARTNRSTSNGSRTGAIANQRIKIPHTFQVHTYTRPTICQYCKKLLRGLFKQ
GMQCNDCHYNVHKKCVEFVPKDCESNFHNVDVMNDAASSNSTNERDSLYKEENEDSDFDE
AAFNNNFNAANREILPPPIIPTPISNNNNNNNKVNGSVKLEVIDDSYDSISEQSRHSDAS
SSPSANIPLQRIVQSVKHTKKRDGKAMKEGWLVHFTNKDKTIKRHYWRLDSKAITMFVSD
QGSKYYREIPLNEILTIDTARNMQSDVLHCFEIRTANVDYFVGQDPIYNLKENEGLLTLP
PPDSGIGAYLAKSWETAIRQALMPVTNSSTSSSSEQTSEPEERITDISQLYQIFPDEVLG
SGQFGIVYGGVHRKSHRPVAIKVIDKLRFPTKQEAQLKNEVAILQNLQHPGVVNLERMFE
TPERIFVVMEKLKGDMLEMILSVGRLNERVTKFLITQILVALKHLHSRNICHCDMKPENV
LLSSDAEFPQIKLCDFGFARIIGEKSFRRSVVGTPAYLAPEVLRNKGYNRSLDMWSVGVI
IYVSLSGTFPFNEDEDINDQIQNAAFMYPPNPWKEISSSAIDLINNLLQVKQRKRYTVDK
SLMHPWLQDPVTWHDLRKLEAQVGVRYLTHESDDGRYEECDENNSPTNA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g1561.t1 CDD cd00029 C1 38 87 3.67407E-17
18 g1561.t1 CDD cd00029 C1 154 203 1.47581E-19
20 g1561.t1 CDD cd01239 PH_PKD 319 445 7.1059E-59
21 g1561.t1 CDD cd14082 STKc_PKD 469 726 0.0
16 g1561.t1 Gene3D G3DSA:3.30.60.20 - 34 107 1.8E-21
15 g1561.t1 Gene3D G3DSA:3.30.60.20 - 142 206 1.2E-21
14 g1561.t1 Gene3D G3DSA:2.30.29.30 - 326 449 3.1E-40
17 g1561.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 464 764 5.8E-80
30 g1561.t1 MobiDBLite mobidb-lite consensus disorder prediction 98 144 -
5 g1561.t1 PANTHER PTHR22968 PROTEIN KINASE C, MU 2 765 0.0
9 g1561.t1 PRINTS PR00008 Diacylglycerol/phorbol-ester binding signature 151 165 4.8E-6
6 g1561.t1 PRINTS PR00008 Diacylglycerol/phorbol-ester binding signature 167 176 4.8E-6
8 g1561.t1 PRINTS PR00008 Diacylglycerol/phorbol-ester binding signature 180 191 4.8E-6
7 g1561.t1 PRINTS PR00008 Diacylglycerol/phorbol-ester binding signature 192 204 4.8E-6
3 g1561.t1 Pfam PF00130 Phorbol esters/diacylglycerol binding domain (C1 domain) 38 88 2.2E-14
4 g1561.t1 Pfam PF00130 Phorbol esters/diacylglycerol binding domain (C1 domain) 154 205 8.5E-16
1 g1561.t1 Pfam PF00169 PH domain 327 397 2.3E-6
2 g1561.t1 Pfam PF00069 Protein kinase domain 477 727 7.8E-71
28 g1561.t1 ProSitePatterns PS00479 Zinc finger phorbol-ester/DAG-type signature. 38 87 -
27 g1561.t1 ProSitePatterns PS00479 Zinc finger phorbol-ester/DAG-type signature. 154 203 -
29 g1561.t1 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 479 502 -
26 g1561.t1 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 590 602 -
32 g1561.t1 ProSiteProfiles PS50081 Zinc finger phorbol-ester/DAG-type profile. 37 87 14.916
31 g1561.t1 ProSiteProfiles PS50081 Zinc finger phorbol-ester/DAG-type profile. 153 203 15.45
34 g1561.t1 ProSiteProfiles PS50003 PH domain profile. 325 443 8.398
33 g1561.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 473 727 46.308
25 g1561.t1 SMART SM00109 c1_12 38 87 4.0E-14
24 g1561.t1 SMART SM00109 c1_12 154 203 1.1E-17
22 g1561.t1 SMART SM00233 PH_update 326 445 0.001
23 g1561.t1 SMART SM00220 serkin_6 473 727 6.3E-93
10 g1561.t1 SUPERFAMILY SSF57889 Cysteine-rich domain 23 88 1.94E-19
11 g1561.t1 SUPERFAMILY SSF57889 Cysteine-rich domain 148 205 9.57E-19
12 g1561.t1 SUPERFAMILY SSF50729 PH domain-like 327 443 9.42E-28
13 g1561.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 476 740 3.78E-80

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
GO:0035556 intracellular signal transduction 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