General information for g9099.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 5’-AMP-activated protein kinase subunit gamma-2.
Parent gene
- The parent gene g9099 is located on chr_1: 110384..115146 (- 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 | g9099 | g9099.t1 | TTS | g9099.t1 | 109889 | 109889 |
| chr_1 | g9099 | g9099.t1 | isoform | g9099.t1 | 110384 | 115146 |
| chr_1 | g9099 | g9099.t1 | exon | g9099.t1.exon1 | 110384 | 111049 |
| chr_1 | g9099 | g9099.t1 | cds | g9099.t1.CDS1 | 110384 | 111049 |
| chr_1 | g9099 | g9099.t1 | exon | g9099.t1.exon2 | 111116 | 111187 |
| chr_1 | g9099 | g9099.t1 | cds | g9099.t1.CDS2 | 111116 | 111187 |
| chr_1 | g9099 | g9099.t1 | exon | g9099.t1.exon3 | 111245 | 111376 |
| chr_1 | g9099 | g9099.t1 | cds | g9099.t1.CDS3 | 111245 | 111376 |
| chr_1 | g9099 | g9099.t1 | exon | g9099.t1.exon4 | 111438 | 111497 |
| chr_1 | g9099 | g9099.t1 | cds | g9099.t1.CDS4 | 111438 | 111497 |
| chr_1 | g9099 | g9099.t1 | exon | g9099.t1.exon5 | 111555 | 111670 |
| chr_1 | g9099 | g9099.t1 | cds | g9099.t1.CDS5 | 111555 | 111670 |
| chr_1 | g9099 | g9099.t1 | exon | g9099.t1.exon6 | 111731 | 112021 |
| chr_1 | g9099 | g9099.t1 | cds | g9099.t1.CDS6 | 111731 | 112021 |
| chr_1 | g9099 | g9099.t1 | exon | g9099.t1.exon7 | 114316 | 114364 |
| chr_1 | g9099 | g9099.t1 | cds | g9099.t1.CDS7 | 114316 | 114364 |
| chr_1 | g9099 | g9099.t1 | exon | g9099.t1.exon8 | 114733 | 115146 |
| chr_1 | g9099 | g9099.t1 | cds | g9099.t1.CDS8 | 114733 | 115146 |
| chr_1 | g9099 | g9099.t1 | TSS | g9099.t1 | NA | NA |
Sequences
>g9099.t1 Gene=g9099 Length=1800
ATGTTCAGAAAATTTTCACTCTTTGATTCTTCTCCACCACCTGCAAAAATTTCAATTAAT
CCACCTCAAAGACAAAGCTCAAGCAAAGCTCAAAGAAAATCGCCAATAAAATGTGCTATA
ATTAATACATTACAACTACCAAATCCTCCGTCTGAGTTGACGTCTAGCCTTTTCAAACCA
ATAGCTAAACGTTCGAAATCATTGGATCATTCGAACAATCGTGATGGTGTAAAACATGCG
TTTCATCAAAATCATTCAAAAAATACTCGAAAGGCTGCAACATTACCACCACTAATAATT
AATCGTGAGTTACCACAAACGTCACCGACAATTCGTGGTAATTGGTATACGCGCTTTGGT
AATTCGTTAAGGAGAGGTGTATGGGCACGTAGACATTCAATTGCAGAATATCAATTACCT
GTTGCAGATCCGTTCCTAGAAAAAGTTAATTTGTCTGATTTAGAAGAAGATGAATCACAA
ATTTTTGTTAAATTCTTCCGCTTTCATAAATGTTATGATTTAATACCGACATCAGCAAAG
TTAGTTGTATTTGATACTCAACTATTAGTCAAGAAAGCGTTTTATGCTTTGGTATATAAT
GGAGTACGAGCAGCACCTCTCTGGGACTCTGAGCAACAAAAATTTGTTGGAATGCTTACA
ATAACAGATTTTATAAAAATCCTCAAAATGTACTACACATCACCCAACTGCTCAATGGAT
CAACTTGAAGAACATAAACTTGCAACTTGGAGAAATGTTCTTAAAGACCATGTGAATTTA
ATAAGTATTAGTCCTGATGCATCTCTTTATGATGCTATTAAAACTTTAATACATAATCGC
ATTCATCGCTTACCAGTTATTGATCCATTGACCGGAAATGTTCTTTATATTTTGACCCAT
AAACGAATACTTCGTTTTCTATTTCTTTACATTAATGAACTTCCAAAACCATCATATATG
CATAAAACATTGCGAGAATTGAAAATAGGCACATACGACAATATTGAAACATCAACAGAA
GATACAAGCATCATTACTGCTCTAAAAAAATTTGTCGATAGGCGAGTGTCAGCATTACCA
ATGGTCGATTCAGAGGGCCGCCTTACAGACATTTACGCAAAGTTTGATGTGATTAATCTA
GCAGCCGAGAAAACTTACAACGATTTAGATGTAAGTCTAAAAAAGGCTAATGAGCATCGC
AACGCGTGGTTCGAAGGCGTGCAAAAGTGCAATTTGGATGAAACACTGTACACTGTGATG
GAAAGAATTGTTCGTGCTGAAGTACATCGATTGGTAGTAGTTGATGAAGATCAAAAAGTA
ATTGGCATCATTTCATTATCCGATATTCTTCTTTATCTCGTATTACGATGTGCGGGTGAT
GGTCTTGGTGATTCTGAATCATTAAGAGCAACAGATCCGATTGTTCAGACACGTGAACGT
ACCGACAGTACGAGTCAATATATGTTTAACAATAGAAGTAATGAGAGTATTGAGGAGGAA
ACTAACAATGATTTAGAGGCGGAGAGTGAAGATCAAAGTGGTGGTGATAGTAATAATAAT
GTAAAAAATGATGAGGAAGCAGAAATGGCAGAAGAAGCTTTGCCATCAACCGATGACAAG
ACTGATGACGACAATGAGAACAACAATGTTAAAACTCCACCTGAAATTTCAAAAGATGAA
GTGATACACATTGAGGAAGAAGAAGATCAAGTCAACTTGTCAACGATGAACAACAATGGC
AGCAATAACTTAAATAACACACTAAATATTCAACGCGAAATGGCGATTGTCAGCGAATGA
>g9099.t1 Gene=g9099 Length=599
MFRKFSLFDSSPPPAKISINPPQRQSSSKAQRKSPIKCAIINTLQLPNPPSELTSSLFKP
IAKRSKSLDHSNNRDGVKHAFHQNHSKNTRKAATLPPLIINRELPQTSPTIRGNWYTRFG
NSLRRGVWARRHSIAEYQLPVADPFLEKVNLSDLEEDESQIFVKFFRFHKCYDLIPTSAK
LVVFDTQLLVKKAFYALVYNGVRAAPLWDSEQQKFVGMLTITDFIKILKMYYTSPNCSMD
QLEEHKLATWRNVLKDHVNLISISPDASLYDAIKTLIHNRIHRLPVIDPLTGNVLYILTH
KRILRFLFLYINELPKPSYMHKTLRELKIGTYDNIETSTEDTSIITALKKFVDRRVSALP
MVDSEGRLTDIYAKFDVINLAAEKTYNDLDVSLKKANEHRNAWFEGVQKCNLDETLYTVM
ERIVRAEVHRLVVVDEDQKVIGIISLSDILLYLVLRCAGDGLGDSESLRATDPIVQTRER
TDSTSQYMFNNRSNESIEEETNNDLEAESEDQSGGDSNNNVKNDEEAEMAEEALPSTDDK
TDDDNENNNVKTPPEISKDEVIHIEEEEDQVNLSTMNNNGSNNLNNTLNIQREMAIVSE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g9099.t1 | CDD | cd04618 | CBS_euAMPK_gamma-like_repeat1 | 170 | 305 | 1.00622E-82 |
| 10 | g9099.t1 | CDD | cd04641 | CBS_euAMPK_gamma-like_repeat2 | 331 | 454 | 7.01617E-69 |
| 8 | g9099.t1 | Gene3D | G3DSA:3.10.580.10 | - | 142 | 312 | 3.1E-69 |
| 9 | g9099.t1 | Gene3D | G3DSA:3.10.580.10 | - | 313 | 456 | 8.4E-58 |
| 16 | g9099.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 33 | - |
| 18 | g9099.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 473 | 496 | - |
| 19 | g9099.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 473 | 560 | - |
| 17 | g9099.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 521 | 549 | - |
| 4 | g9099.t1 | PANTHER | PTHR13780 | AMP-ACTIVATED PROTEIN KINASE, GAMMA REGULATORY SUBUNIT | 104 | 459 | 8.6E-152 |
| 5 | g9099.t1 | PANTHER | PTHR13780:SF122 | 5’-AMP-ACTIVATED PROTEIN KINASE SUBUNIT GAMMA-2 | 104 | 459 | 8.6E-152 |
| 3 | g9099.t1 | Pfam | PF00571 | CBS domain | 259 | 307 | 1.6E-7 |
| 2 | g9099.t1 | Pfam | PF00571 | CBS domain | 339 | 379 | 0.0013 |
| 1 | g9099.t1 | Pfam | PF00571 | CBS domain | 409 | 454 | 3.8E-11 |
| 21 | g9099.t1 | ProSiteProfiles | PS51371 | CBS domain profile. | 176 | 239 | 9.602 |
| 23 | g9099.t1 | ProSiteProfiles | PS51371 | CBS domain profile. | 253 | 314 | 12.1 |
| 20 | g9099.t1 | ProSiteProfiles | PS51371 | CBS domain profile. | 329 | 389 | 9.595 |
| 22 | g9099.t1 | ProSiteProfiles | PS51371 | CBS domain profile. | 403 | 465 | 10.954 |
| 12 | g9099.t1 | SMART | SM00116 | cbs_1 | 180 | 229 | 6.9E-6 |
| 14 | g9099.t1 | SMART | SM00116 | cbs_1 | 259 | 308 | 2.0E-8 |
| 15 | g9099.t1 | SMART | SM00116 | cbs_1 | 334 | 382 | 1.1E-4 |
| 13 | g9099.t1 | SMART | SM00116 | cbs_1 | 406 | 454 | 5.9E-8 |
| 7 | g9099.t1 | SUPERFAMILY | SSF54631 | CBS-domain pair | 160 | 316 | 7.3E-40 |
| 6 | g9099.t1 | SUPERFAMILY | SSF54631 | CBS-domain pair | 319 | 457 | 8.04E-29 |
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:0071900 | regulation of protein serine/threonine kinase activity | BP |
| GO:0032559 | adenyl ribonucleotide binding | MF |
KEGG
Orthology
- This transcript has been annotated with K07200 (5’-AMP-activated protein kinase, regulatory gamma subunit)
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.
