General information for g12671.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 5’-AMP-activated protein kinase catalytic subunit alpha-2.
Parent gene
- The parent gene g12671 is located on chr_1: 25150483..25152395 (+ strand)
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.t3 | TSS | g12671.t3 | 25150200 | 25150200 |
| chr_1 | g12671 | g12671.t3 | isoform | g12671.t3 | 25150483 | 25152395 |
| chr_1 | g12671 | g12671.t3 | exon | g12671.t3.exon1 | 25150483 | 25151046 |
| chr_1 | g12671 | g12671.t3 | exon | g12671.t3.exon2 | 25151197 | 25151370 |
| chr_1 | g12671 | g12671.t3 | exon | g12671.t3.exon3 | 25151438 | 25152395 |
| chr_1 | g12671 | g12671.t3 | cds | g12671.t3.CDS1 | 25151517 | 25152395 |
| chr_1 | g12671 | g12671.t3 | TTS | g12671.t3 | 25152698 | 25152698 |
Sequences
>g12671.t3 Gene=g12671 Length=1696
ATGTCTGAGAGTTCAGCAGCACCTTTGATCAAGATCGGTCACTACACGCTAGGACGGACG
CTCGGAAGTAAGTAAAAATATTTTAAATTTTTTTTATTACGACGTAGATTTTAATCAAAA
ATAAAATTATCTCTTTAATTAGATGGCACTTTCGGAAAAGTCAAAATTGGCGAGCATGTC
GTCACAAAGCATAAAGTGGCAATCAAAATTTTAAATCGTCAGAAAATCAAATCACTCGAT
GTGGTTGGAAAAATTCGACGAGAAATTCAAAATTTAAAACTTTTTCGTCATCCTCACATA
ATAAAACTTTATCAAGTGATTTCAACACCTACCGATATTTTTATGATTATGGAATATGTC
AGTGGCGGTGAATTATTTGATTATATTGTCAAACAAGGAAAACTTCAAGAATCAGAAGCA
AGAAAATTTTTCCAACAAATTATATCTGGTGTTGATTATTGTCATCGGCACATGATTGTT
CATCGAGATTTGAAACCTGAAAATTTATTATTAGACCATAACATGCACGTGAAAATTGCC
GATTTTGGATTGAGTAATATGATGATTGATTTTTTAATTTCTTAGACGAACATCATGTGG
AAGTCCGAACTATGCGGCACCAGAAGTTATTAGTGGCAAACTCTATGCTGGTCCAGAAGT
TGATATTTGGTCATGTGGAGTCATTCTTTATGCTTTACTTTGTGGAACACTTCCATTCGA
TGATGAACACGTGCCTACTTTATTTCGTAAAATCAAATCAGGAATTTTTGCCATACCTGA
ATATTTGAATAAGCAAGTTGTTTCACTTTTATGTCAAATGCTTCAAGTTGATCCACTTAA
AAGAGCAACAGTTGAAGAAATTAAGAAACATGAATGGTTCCAAAAAGATTTACCAGCCTA
TCTCTTCCCATCGCCAGTCGAACAAGATTCATCAGTTATTGATATTGGCGCTGTTTCAGA
AGTTTGTGAGAAATTTGGTGTAAAAGAAGTTGAAGTTCATAATGCACTTCTTTCTGGTGA
TCCACATGATCAACTTGCCATTGCTTATCATTTAATTATTGATAATCGTCGTATGGATGA
AGCTGCAAAGGCTGAAATTAAAGATTTTTATGTTGCTTCATCACCACCACCGCAAGTCAT
AGTGCAAGCAACACATCCAGTCTCTGACAATAATCCTACAAAGCCACATCCCGAACGAAT
TGCACCATTACGAGAGAAAGCAGTAACATCGCATGCATTGAGCTACACTGAAGGCACAAC
TGTACCAGCTGATCGATTGATTACTCAAGATAAATATCGAGGAACACCAGTAAAAAGAGC
AAAATGGCATTTGGGAATTCGTTCACAAAGCAAACCTAATGATATTATGTTGGAAGTTTA
TCGTGCAATGAAAGCTTTAGATTATGAATGGAAAGTCATCAATCCATATCATGTTCGTGT
TCGTAAGAAGAATAAAGATGGTCGTTATGTAAAAATGTCACTGCAGCTTTATCAAGTCGA
TCCAAAGTCATATCTTGTCGATTTTAAAAGTCTTACAAATGAAGAAGTTGAACAGAGTGA
TGATATGATAAGTTTAACGCCACCAGTTGCAAGTCAACAACAAATTCCATTACAACAAAC
ACCACAAATTTCTGGTCATCATACGATGGAATTCTTTGAAATGTGCGCATCTTTGATCAT
TCAATTGGCTCGTTAA
>g12671.t3 Gene=g12671 Length=292
MLQVDPLKRATVEEIKKHEWFQKDLPAYLFPSPVEQDSSVIDIGAVSEVCEKFGVKEVEV
HNALLSGDPHDQLAIAYHLIIDNRRMDEAAKAEIKDFYVASSPPPQVIVQATHPVSDNNP
TKPHPERIAPLREKAVTSHALSYTEGTTVPADRLITQDKYRGTPVKRAKWHLGIRSQSKP
NDIMLEVYRAMKALDYEWKVINPYHVRVRKKNKDGRYVKMSLQLYQVDPKSYLVDFKSLT
NEEVEQSDDMISLTPPVASQQQIPLQQTPQISGHHTMEFFEMCASLIIQLAR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g12671.t3 | CDD | cd14336 | UBA_AID_AMPKalpha | 38 | 101 | 0 |
| 7 | g12671.t3 | CDD | cd12122 | AMPKA_C | 167 | 290 | 0 |
| 5 | g12671.t3 | Gene3D | G3DSA:1.10.8.10 | DNA helicase RuvA subunit | 32 | 92 | 0 |
| 6 | g12671.t3 | Gene3D | G3DSA:3.30.310.80 | Kinase associated domain 1 | 173 | 292 | 0 |
| 2 | g12671.t3 | PANTHER | PTHR24343:SF303 | 5’-AMP-ACTIVATED PROTEIN KINASE CATALYTIC SUBUNIT ALPHA-2 | 1 | 247 | 0 |
| 3 | g12671.t3 | PANTHER | PTHR24343 | SERINE/THREONINE KINASE | 1 | 247 | 0 |
| 1 | g12671.t3 | Pfam | PF16579 | Adenylate sensor of SNF1-like protein kinase | 169 | 250 | 0 |
| 4 | g12671.t3 | SUPERFAMILY | SSF103243 | KA1-like | 77 | 291 | 0 |
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.
