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.t3 TTS g10303.t3 8795493 8795493
chr_1 g10303 g10303.t3 isoform g10303.t3 8795787 8797102
chr_1 g10303 g10303.t3 exon g10303.t3.exon1 8795787 8796553
chr_1 g10303 g10303.t3 cds g10303.t3.CDS1 8796422 8796553
chr_1 g10303 g10303.t3 exon g10303.t3.exon2 8796657 8796746
chr_1 g10303 g10303.t3 cds g10303.t3.CDS2 8796657 8796746
chr_1 g10303 g10303.t3 exon g10303.t3.exon3 8796821 8797102
chr_1 g10303 g10303.t3 cds g10303.t3.CDS3 8796821 8797039
chr_1 g10303 g10303.t3 TSS g10303.t3 NA NA

Sequences

>g10303.t3 Gene=g10303 Length=1139
GTACGTGCCAAAACTGATGTAAAATTATGGGGAATCGATCGCGATTCATATCGTAGGATT
CTTATGGGCTCAACAATTCGTAAACGCAAGATGTATGATGAATTTTTGTCACGTGTCTCG
ATCTTAGAAAGTTTGGATAAATGGGAGAGACTTACAGTAGCTGATGCTCTTGAGCCAGTC
AGTTTTGAAGAGGGTGAGACGATTGTGAAGCAAGGTGAGCCTGGAAACGATTTCTATATT
ATTGTTGAAGGTTGTGCTACCGTATTGCAACAAAGAGGAGAGAATGAAGAGCCATCGGAA
GTGGGAAGGCTCGGACCATCCGATTACTTTGGAGAGATTGCTCTTCTTTTGGATAGACCT
CGTGCAGCGACGGTTATCGCACGTACTCCATTAAAATGTGTCAAACTTGATAGAGCTCGC
TTTGAACGAGTATTGGGCTTATGTGCCGACATTCTCAAACGCAACATCACTCAATACAAT
AGCTTTGTATCATTATCAGTTTAGGCTATATAAAAACTGCAGCATCATAATGCAATGATG
CGTAATTTCATCTAGGTATTACGTAACTTTTCATCATTATTTTGGTTCTTCATCTCTATT
TAAGTATAGTCTTCTTAATTAAAAATTTACATCTGATGCCATTCATCACTTTTTTGCAAC
TATGATAAATGGACAAAAGTGATGACAAAATAGAAACTTTAAAATTTTGTACTTTTCATT
AACTTTCGAAACAGAATGTATTGGTTTTTGGTTAACTGTATCTCATGTCATTTTATAGAT
TTTTCTTGTTTAACCATCTATATCCACTCTTTTTTCTCTTCTTGTTAATATTTGATTACT
TTTGTCATAAATGTTCGTCATACGAATAATATATAATTCAATACTATCTAGGCTTTTATG
ATTTATTTTTATTTATAATTTACGAATTTTAAAGTGGATGTTTTTCCACTGCTGGACTAA
AATTTAAATAGAAAAATTTGCTAAAAAATATAAATGGAGAAAGAAAGAATATAACAAAAT
TTAATAGTCCAGTTCAAATTCTCCATTTTACCCAATAATTTATATTAGAATTTATCTATC
TAGATGCATAATATGCTCAAAATATGTATATTTTTCATTAATTTAAAATAAATCGAAAA

>g10303.t3 Gene=g10303 Length=146
MGSTIRKRKMYDEFLSRVSILESLDKWERLTVADALEPVSFEEGETIVKQGEPGNDFYII
VEGCATVLQQRGENEEPSEVGRLGPSDYFGEIALLLDRPRAATVIARTPLKCVKLDRARF
ERVLGLCADILKRNITQYNSFVSLSV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g10303.t3 CDD cd00038 CAP_ED 20 135 4.69216E-35
10 g10303.t3 Gene3D G3DSA:2.60.120.10 Jelly Rolls 2 143 1.4E-58
2 g10303.t3 PANTHER PTHR11635 CAMP-DEPENDENT PROTEIN KINASE REGULATORY CHAIN 1 146 3.4E-78
3 g10303.t3 PANTHER PTHR11635:SF126 CAMP-DEPENDENT PROTEIN KINASE TYPE I-BETA REGULATORY SUBUNIT 1 146 3.4E-78
8 g10303.t3 PRINTS PR00103 cAMP-dependent protein kinase signature 41 55 2.1E-21
6 g10303.t3 PRINTS PR00103 cAMP-dependent protein kinase signature 56 70 2.1E-21
7 g10303.t3 PRINTS PR00103 cAMP-dependent protein kinase signature 87 96 2.1E-21
4 g10303.t3 PRINTS PR00103 cAMP-dependent protein kinase signature 99 110 2.1E-21
5 g10303.t3 PRINTS PR00103 cAMP-dependent protein kinase signature 120 132 2.1E-21
1 g10303.t3 Pfam PF00027 Cyclic nucleotide-binding domain 39 124 3.6E-23
13 g10303.t3 ProSitePatterns PS00888 Cyclic nucleotide-binding domain signature 1. 47 63 -
12 g10303.t3 ProSitePatterns PS00889 Cyclic nucleotide-binding domain signature 2. 89 106 -
15 g10303.t3 ProSiteProfiles PS50042 cAMP/cGMP binding motif profile. 20 141 41.177
14 g10303.t3 SMART SM00100 cnmp_10 20 139 2.9E-35
9 g10303.t3 SUPERFAMILY SSF51206 cAMP-binding domain-like 13 136 1.44E-33

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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