Gene loci information

Transcript annotation

  • This transcript has been annotated as cAMP-dependent protein kinase type II 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 g11834 g11834.t2 isoform g11834.t2 18671600 18677819
chr_1 g11834 g11834.t2 exon g11834.t2.exon1 18671600 18671999
chr_1 g11834 g11834.t2 TSS g11834.t2 18671608 18671608
chr_1 g11834 g11834.t2 exon g11834.t2.exon2 18676361 18676659
chr_1 g11834 g11834.t2 cds g11834.t2.CDS1 18676446 18676659
chr_1 g11834 g11834.t2 exon g11834.t2.exon3 18676875 18677062
chr_1 g11834 g11834.t2 cds g11834.t2.CDS2 18676875 18677062
chr_1 g11834 g11834.t2 exon g11834.t2.exon4 18677264 18677364
chr_1 g11834 g11834.t2 cds g11834.t2.CDS3 18677264 18677364
chr_1 g11834 g11834.t2 exon g11834.t2.exon5 18677502 18677819
chr_1 g11834 g11834.t2 cds g11834.t2.CDS4 18677502 18677817
chr_1 g11834 g11834.t2 TTS g11834.t2 18678356 18678356

Sequences

>g11834.t2 Gene=g11834 Length=1306
GGGGAAGACAGTAGAAATCGCGTTTAAAAAGTTTCAAGAGGAAATTTTTTTCACTATAAT
ATTTAATGATTTTTTATCGGAAAAATCTTTTTTCGGTTTAATTAGTGAATTTAGTTTGAT
AGCCAGCAGTGGCTATAAGCGATAAAAATCGAAAGTGAAAAATTTTGAGAGCAAATTGTG
CGAGAAAAAATATTTTAAAAATTTCCTGATGGAAAATTAAAATCGAAAAAAAATCGAAGA
GAGTGAGAGTAGAAGCAAAAAAATTAGTCAAAGTGTATAAATTGTGAGAAAATTTAATTT
GAACCATTTGGCATTAAAATTATATCTGAAGTGCTTCACGCCATCGGAACAATCAAAAAA
GTGTGATCTAATTGATAAAAATATCCATATATTTAATAAACATATCGCACAATAAATAAC
TAGGTAAAATAACATCAAAAGCATATAGTTTAGTAAAAAGTGAAAATAATTTCGCTAAAA
GCATCATGTCAAAACAGAAAGTGAAAGTTCCCGATAGCCTTCGAGATGTTTTATTAGAAT
TCTCAATTGCTTACTTGCTTGAACAGCCTGGCGATGTAATTGACTTTGCAGTTGATTTCT
TTACAAAGCTTCAAACAAATCGAGCACAAACAGGGATAAGCATCGGATCAAATCAAAAAC
CAACTACACCAGATGAGAGTATCATTTCACAAGATGAAGAACCTGTTGTTAATCGCTTTG
CTGCGGGTCGACGAAAGTCTGTTTTTGCCGAACAGTATGATCCCGAGGAGGATAACGACG
ATGAAGATAATAACAAGGTCATATTCCCAAAGACAGATGAACAACGTGCCCGCCTTTGTG
ATTCGGTGAAAAATATTTTGCTCTTCCGTGCACTTGATCCAGAGCAGATGAATGAAATTC
TTGACGCAATGTTTGAGAAGAAAGTGAGACCCGATGATACGATTATTCGACAGGGCGACG
ACGGAGATAATTTTTACGTCATTGAGTCTGGAATCTATAATGCTTATGTTGGTGAAGATA
ACAAACATGTGCATACATATGAAAATCGTGGTTCATTTGGAGAATTAGCTTTGCTATACA
ATATGCCACGTGCAGCAACTATTCGAGCAGTAACTGATGGTCAACTGTGGGCATTAGATC
GTCAAACATTCCGACGAATTCTTCTCAAATCAGCATTCAGAAAAAGAAAAATGTACGAAA
CACTCATTAATAGTGTGCCAATGCTTAAAGCTTTACAAAATTATGAACGAATGAATTTGG
CGGATGCTTTAATTCCAAAAGTTTATCAAGAAGGTGAACAAATTAT

>g11834.t2 Gene=g11834 Length=273
MSKQKVKVPDSLRDVLLEFSIAYLLEQPGDVIDFAVDFFTKLQTNRAQTGISIGSNQKPT
TPDESIISQDEEPVVNRFAAGRRKSVFAEQYDPEEDNDDEDNNKVIFPKTDEQRARLCDS
VKNILLFRALDPEQMNEILDAMFEKKVRPDDTIIRQGDDGDNFYVIESGIYNAYVGEDNK
HVHTYENRGSFGELALLYNMPRAATIRAVTDGQLWALDRQTFRRILLKSAFRKRKMYETL
INSVPMLKALQNYERMNLADALIPKVYQEGEQI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g11834.t2 CDD cd00038 CAP_ED 126 237 2.78829E-34
11 g11834.t2 Gene3D G3DSA:1.20.890.10 - 4 47 5.7E-14
12 g11834.t2 Gene3D G3DSA:2.60.120.10 Jelly Rolls 85 227 7.6E-54
13 g11834.t2 Gene3D G3DSA:2.60.120.10 Jelly Rolls 228 273 3.2E-9
3 g11834.t2 PANTHER PTHR11635 CAMP-DEPENDENT PROTEIN KINASE REGULATORY CHAIN 5 273 1.9E-115
4 g11834.t2 PANTHER PTHR11635:SF162 CAMP-DEPENDENT PROTEIN KINASE TYPE II REGULATORY SUBUNIT 5 273 1.9E-115
5 g11834.t2 PRINTS PR00103 cAMP-dependent protein kinase signature 147 161 5.8E-14
8 g11834.t2 PRINTS PR00103 cAMP-dependent protein kinase signature 162 176 5.8E-14
7 g11834.t2 PRINTS PR00103 cAMP-dependent protein kinase signature 189 198 5.8E-14
6 g11834.t2 PRINTS PR00103 cAMP-dependent protein kinase signature 201 212 5.8E-14
1 g11834.t2 Pfam PF02197 Regulatory subunit of type II PKA R-subunit 11 47 5.9E-5
2 g11834.t2 Pfam PF00027 Cyclic nucleotide-binding domain 145 227 1.9E-20
16 g11834.t2 ProSitePatterns PS00888 Cyclic nucleotide-binding domain signature 1. 153 169 -
15 g11834.t2 ProSitePatterns PS00889 Cyclic nucleotide-binding domain signature 2. 191 208 -
20 g11834.t2 ProSiteProfiles PS50042 cAMP/cGMP binding motif profile. 126 243 39.431
19 g11834.t2 ProSiteProfiles PS50042 cAMP/cGMP binding motif profile. 246 273 7.828
17 g11834.t2 SMART SM00394 akam_3 10 47 0.0027
18 g11834.t2 SMART SM00100 cnmp_10 126 244 6.4E-27
10 g11834.t2 SUPERFAMILY SSF47391 Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit 3 46 6.02E-10
9 g11834.t2 SUPERFAMILY SSF51206 cAMP-binding domain-like 108 238 3.27E-34

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

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