Gene loci information

Transcript annotation

  • This transcript has been annotated as 5’-AMP-activated protein kinase catalytic subunit alpha-1.

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 g12671 g12671.t2 TSS g12671.t2 25150200 25150200
chr_1 g12671 g12671.t2 isoform g12671.t2 25150483 25151548
chr_1 g12671 g12671.t2 exon g12671.t2.exon1 25150483 25150549
chr_1 g12671 g12671.t2 cds g12671.t2.CDS1 25150483 25150549
chr_1 g12671 g12671.t2 exon g12671.t2.exon2 25150625 25151046
chr_1 g12671 g12671.t2 cds g12671.t2.CDS2 25150625 25151046
chr_1 g12671 g12671.t2 exon g12671.t2.exon3 25151218 25151370
chr_1 g12671 g12671.t2 cds g12671.t2.CDS3 25151218 25151265
chr_1 g12671 g12671.t2 exon g12671.t2.exon4 25151438 25151548
chr_1 g12671 g12671.t2 TTS g12671.t2 NA NA

Sequences

>g12671.t2 Gene=g12671 Length=753
ATGTCTGAGAGTTCAGCAGCACCTTTGATCAAGATCGGTCACTACACGCTAGGACGGACG
CTCGGAAATGGCACTTTCGGAAAAGTCAAAATTGGCGAGCATGTCGTCACAAAGCATAAA
GTGGCAATCAAAATTTTAAATCGTCAGAAAATCAAATCACTCGATGTGGTTGGAAAAATT
CGACGAGAAATTCAAAATTTAAAACTTTTTCGTCATCCTCACATAATAAAACTTTATCAA
GTGATTTCAACACCTACCGATATTTTTATGATTATGGAATATGTCAGTGGCGGTGAATTA
TTTGATTATATTGTCAAACAAGGAAAACTTCAAGAATCAGAAGCAAGAAAATTTTTCCAA
CAAATTATATCTGGTGTTGATTATTGTCATCGGCACATGATTGTTCATCGAGATTTGAAA
CCTGAAAATTTATTATTAGACCATAACATGCACGTGAAAATTGCCGATTTTGGATTGAGT
AATATGATGACGAACATCATGTGGAAGTCCGAACTATGCGGCACCAGAAGTTATTAGTGG
CAAACTCTATGCTGGTCCAGAAGTTGATATTTGGTCATGTGGAGTCATTCTTTATGCTTT
ACTTTGTGGAACACTTCCATTCGATGATGAACACGTGCCTACTTTATTTCGTAAAATCAA
ATCAGGAATTTTTGCCATACCTGAATATTTGAATAAGCAAGTTGTTTCACTTTTATGTCA
AATGCTTCAAGTTGATCCACTTAAAAGAGCAAC

>g12671.t2 Gene=g12671 Length=178
MSESSAAPLIKIGHYTLGRTLGNGTFGKVKIGEHVVTKHKVAIKILNRQKIKSLDVVGKI
RREIQNLKLFRHPHIIKLYQVISTPTDIFMIMEYVSGGELFDYIVKQGKLQESEARKFFQ
QIISGVDYCHRHMIVHRDLKPENLLLDHNMHVKIADFGLSNMMTNIMWKSELCGTRSY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g12671.t2 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 5 94 7.5E-34
9 g12671.t2 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 95 178 3.3E-30
2 g12671.t2 PANTHER PTHR24343:SF306 5’-AMP-ACTIVATED PROTEIN KINASE CATALYTIC SUBUNIT ALPHA-1 8 178 5.9E-94
3 g12671.t2 PANTHER PTHR24343 SERINE/THREONINE KINASE 8 178 5.9E-94
1 g12671.t2 Pfam PF00069 Protein kinase domain 15 178 7.9E-51
7 g12671.t2 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 21 44 -
6 g12671.t2 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 134 146 -
10 g12671.t2 ProSiteProfiles PS50011 Protein kinase domain profile. 15 178 37.955
5 g12671.t2 SMART SM00220 serkin_6 15 178 1.1E-29
4 g12671.t2 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 12 178 1.62E-61

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:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation BP

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. There were no conditions that were differentially expressed