Gene loci information

Transcript annotation

  • This transcript has been annotated as cAMP-dependent protein kinase type I regulatory subunit.

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 g10303 g10303.t2 TTS g10303.t2 8795493 8795493
chr_1 g10303 g10303.t2 isoform g10303.t2 8796422 8805985
chr_1 g10303 g10303.t2 exon g10303.t2.exon1 8796422 8796553
chr_1 g10303 g10303.t2 cds g10303.t2.CDS1 8796422 8796553
chr_1 g10303 g10303.t2 exon g10303.t2.exon2 8796657 8796746
chr_1 g10303 g10303.t2 cds g10303.t2.CDS2 8796657 8796746
chr_1 g10303 g10303.t2 exon g10303.t2.exon3 8796821 8797102
chr_1 g10303 g10303.t2 cds g10303.t2.CDS3 8796821 8797102
chr_1 g10303 g10303.t2 exon g10303.t2.exon4 8797160 8797252
chr_1 g10303 g10303.t2 cds g10303.t2.CDS4 8797160 8797252
chr_1 g10303 g10303.t2 exon g10303.t2.exon5 8798202 8798402
chr_1 g10303 g10303.t2 cds g10303.t2.CDS5 8798202 8798402
chr_1 g10303 g10303.t2 exon g10303.t2.exon6 8798490 8798651
chr_1 g10303 g10303.t2 cds g10303.t2.CDS6 8798490 8798651
chr_1 g10303 g10303.t2 exon g10303.t2.exon7 8805977 8805985
chr_1 g10303 g10303.t2 cds g10303.t2.CDS7 8805977 8805985
chr_1 g10303 g10303.t2 TSS g10303.t2 8806617 8806617

Sequences

>g10303.t2 Gene=g10303 Length=969
ATGAGTGAGGAACAAGCCAAATTAGATGCAAATAAACAAGCAACAAGTCCAGATGAATGT
GAGGACTTATCACCAATGCCACCGACATCAGCACCACCATCCGTACGTCGACGGGGCGCA
TTCTCAGCTGAACCCGTAACTGAAGAAGATGCCACTAGTTATGTTAAAAAAGTAGTACCA
AAAGACTATAAAACAATGGCAGCACTCTCAAAAGCGATAGCCAAAAACGTACTTTTTGCG
CATTTAGACGAAAACGAACGTTCAGATATTTTTGATGCAATGTTTCCAGTGAATTGCCTG
CCTGGCGAGTCTATCATTCAACAAGGCGACGAGGGTGACAACTTTTATGTAATTGATCAA
GGAGAAGTTGAGGTGTTTGTAAATTCAGAATTGGTTACAACAATTGGCGAGGGTGGAAGC
TTTGGTGAGCTCGCGCTCATTTATGGAACACCTCGTGCTGCAACTGTACGTGCCAAAACT
GATGTAAAATTATGGGGAATCGATCGCGATTCATATCGTAGGATTCTTATGGGCTCAACA
ATTCGTAAACGCAAGATGTATGATGAATTTTTGTCACGTGTCTCGATCTTAGAAAGTTTG
GATAAATGGGAGAGACTTACAGTAGCTGATGCTCTTGAGCCAGTCAGTTTTGAAGAGGGT
GAGACGATTGTGAAGCAAGGTGAGCCTGGAAACGATTTCTATATTATTGTTGAAGGTTGT
GCTACCGTATTGCAACAAAGAGGAGAGAATGAAGAGCCATCGGAAGTGGGAAGGCTCGGA
CCATCCGATTACTTTGGAGAGATTGCTCTTCTTTTGGATAGACCTCGTGCAGCGACGGTT
ATCGCACGTACTCCATTAAAATGTGTCAAACTTGATAGAGCTCGCTTTGAACGAGTATTG
GGCTTATGTGCCGACATTCTCAAACGCAACATCACTCAATACAATAGCTTTGTATCATTA
TCAGTTTAG

>g10303.t2 Gene=g10303 Length=322
MSEEQAKLDANKQATSPDECEDLSPMPPTSAPPSVRRRGAFSAEPVTEEDATSYVKKVVP
KDYKTMAALSKAIAKNVLFAHLDENERSDIFDAMFPVNCLPGESIIQQGDEGDNFYVIDQ
GEVEVFVNSELVTTIGEGGSFGELALIYGTPRAATVRAKTDVKLWGIDRDSYRRILMGST
IRKRKMYDEFLSRVSILESLDKWERLTVADALEPVSFEEGETIVKQGEPGNDFYIIVEGC
ATVLQQRGENEEPSEVGRLGPSDYFGEIALLLDRPRAATVIARTPLKCVKLDRARFERVL
GLCADILKRNITQYNSFVSLSV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g10303.t2 CDD cd00038 CAP_ED 78 187 1.26335E-33
15 g10303.t2 CDD cd00038 CAP_ED 196 311 2.85314E-34
13 g10303.t2 Gene3D G3DSA:2.60.120.10 Jelly Rolls 46 178 2.7E-53
12 g10303.t2 Gene3D G3DSA:2.60.120.10 Jelly Rolls 179 319 1.6E-57
23 g10303.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 46 -
3 g10303.t2 PANTHER PTHR11635 CAMP-DEPENDENT PROTEIN KINASE REGULATORY CHAIN 7 322 2.6E-170
4 g10303.t2 PANTHER PTHR11635:SF126 CAMP-DEPENDENT PROTEIN KINASE TYPE I-BETA REGULATORY SUBUNIT 7 322 2.6E-170
14 g10303.t2 PIRSF PIRSF000548 PK_regulatory 1 322 1.2E-120
8 g10303.t2 PRINTS PR00103 cAMP-dependent protein kinase signature 99 113 2.8E-28
7 g10303.t2 PRINTS PR00103 cAMP-dependent protein kinase signature 114 128 2.8E-28
9 g10303.t2 PRINTS PR00103 cAMP-dependent protein kinase signature 263 272 2.8E-28
6 g10303.t2 PRINTS PR00103 cAMP-dependent protein kinase signature 275 286 2.8E-28
5 g10303.t2 PRINTS PR00103 cAMP-dependent protein kinase signature 296 308 2.8E-28
2 g10303.t2 Pfam PF00027 Cyclic nucleotide-binding domain 98 177 1.5E-20
1 g10303.t2 Pfam PF00027 Cyclic nucleotide-binding domain 215 300 2.3E-22
22 g10303.t2 ProSitePatterns PS00888 Cyclic nucleotide-binding domain signature 1. 105 121 -
19 g10303.t2 ProSitePatterns PS00889 Cyclic nucleotide-binding domain signature 2. 141 158 -
21 g10303.t2 ProSitePatterns PS00888 Cyclic nucleotide-binding domain signature 1. 223 239 -
20 g10303.t2 ProSitePatterns PS00889 Cyclic nucleotide-binding domain signature 2. 265 282 -
25 g10303.t2 ProSiteProfiles PS50042 cAMP/cGMP binding motif profile. 78 193 45.329
24 g10303.t2 ProSiteProfiles PS50042 cAMP/cGMP binding motif profile. 196 317 41.177
17 g10303.t2 SMART SM00100 cnmp_10 78 194 8.2E-32
18 g10303.t2 SMART SM00100 cnmp_10 196 315 2.9E-35
11 g10303.t2 SUPERFAMILY SSF51206 cAMP-binding domain-like 60 180 1.03E-34
10 g10303.t2 SUPERFAMILY SSF51206 cAMP-binding domain-like 189 311 1.44E-32

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:0001932 regulation of protein phosphorylation BP
GO:0008603 cAMP-dependent protein kinase regulator activity MF
GO:0005952 cAMP-dependent protein kinase complex CC

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