General information for g5609.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phosphoribosylformylglycinamidine synthase.
Parent gene
- The parent gene g5609 is located on chr_2: 10597946..10598677 (+ 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_2 | g5609 | g5609.t3 | isoform | g5609.t3 | 10596608 | 10598617 |
| chr_2 | g5609 | g5609.t3 | exon | g5609.t3.exon1 | 10596608 | 10597886 |
| chr_2 | g5609 | g5609.t3 | cds | g5609.t3.CDS1 | 10596756 | 10597886 |
| chr_2 | g5609 | g5609.t3 | exon | g5609.t3.exon2 | 10597946 | 10598617 |
| chr_2 | g5609 | g5609.t3 | cds | g5609.t3.CDS2 | 10597946 | 10598617 |
| chr_2 | g5609 | g5609.t3 | TTS | g5609.t3 | 10598682 | 10598682 |
| chr_2 | g5609 | g5609.t3 | TSS | g5609.t3 | NA | NA |
Sequences
>g5609.t3 Gene=g5609 Length=1951
TGTGCAACAACAATGTGTTGGTCCACTTCATACACCACTTGCTGATTATGCATTAACTCT
AACTTCACATTTCGAGAAAAATGGCATTGCAACTTCAATTGGTACACAGCCTATTAAAGG
ATTAATTAATGCAGAAGCTGGTGCAAGAATGTCAATTGCTGAAGCAATTTCAAATTTAGT
GTTTGTTAAAATTACTGAGCTTGCAGATGTCAAATGTTCTGGTAATTGGATGTGGGCAGC
TAAACTACCAGGTGAAGGCGCAAAAATGTATGATGCATGTAAAGCAATGTGTGAAATGAT
GAAAGAATTGAATATAGCAGTTGATGGTGGCAAAGATTCTCTCTCAATGGCAGCTAGAGT
TAGTGGAGAAACTGTAAAATCGCCAGGAACTTTAGTAATTTCAACATACGCTCCTTGTCC
TGATGTCACTCTAAGAATCACTCCTGATTTAAAAGCTCCTTCAGAAAATAAAGTTGGTGA
ATTAATTTGGATTAATATTGATGGAAAATTCCGATTAGGTGCTAGTGCTTTAGCTCAATC
ATTGAAACAACAAGGAAATGATTCACCAGATATAGAAAATGTTATTGCATTGAAGAATGC
TTTTAATGTGACTCAAAAACTTCTTGAGAAAAAACTACTCTTATCTGGTCATGATATAAG
TGATGGAGGTTTGATCGTTTGCCTAATTGAAATGGCAATTGGAGGAATGTGTGGAATCAG
TGTAGATTTGAAAAATGCTATGAAAATTTTTAAACTCGAAGAGACATCGATTGAAAATGT
TCTGAAAATTCTCTTTGCTGAAGAATGTGGATGGATTTTGGAATGCAAAAGTGAACATTT
AAAAACAATTCTCGATGAATATAAAAACTCTAATGTGAATGCAATTCATATTGGAAAATC
TAAAGATTTTGGAATGCAATCTCGAATTAAAATTATGTTTGAAAATTTTTCAATAATTGA
CATGACTACACTAGAAGCAATTAAAAAATGGGAACGTACAAGTTTTGAATTTGAAAAACT
TCAAATGAATCTAAAATGTGCAGAGGAAGAATATAATTCATATGATTTAAGATCTGGTCC
CAAATATTTTCTTTCATTTAATCCTGATGATGCTATAAAATTGCTTAAAAAACCATCTGA
TCCTTGGCGTGTTGCAGTTATACGTGAAGAAGGCGTGAATGGAGATCGAGAAATGATTGC
AGCTTTATTAAAGGCTAATTTTGAAGTTTATGATGTTACTATGAGTGACTTGCTTGACAG
AAAAGCTTTTCTTGAAAATTATCGTGGAATAATTTTCCCTGGAGGTTTCAGTTATGCCGA
CACACTTGGTTCAGCAAAAGGATGGGCTGCAAGCATACGATTTAGTGACTTATTACAACC
ACAGTTTGAAAACTTTAAGATTCGAAAAGACACATTTTCACTTGGTGTATGCAATGGTTG
TCAATTGATGAGCTTGATAGGATGGATTGATTATGAAGAAAATTCTACAAATGATGATGT
TCCTTCGATCGCTCTATTGCATAATAAATCTGGTAGATTTGAATGTCGTTGGAGCACATT
GAAAGTTGCTTCAAGTAATGCAATAATGTTAAGACGAATGCAAGGAAGCGTTTTGGGATG
TTGGGTCGCACATGGAGAAGGTCGATTCTCATTCAAAAATCAACAGGTGCTGAAAAATCT
CAAAGCATCAAATTCAATTGCTCTTCATTATGTAGATGACGATATGAAACCTACTGAAAA
ATATCCATTAAATCCAAACGGTAGTGTTGAAGGAATTGCTGCAATTTGCTCAAAAGATGG
TCGTCATTTGGCTATGATGCCTCATCCAGAGAGATGTTGTGAAATGTTCCAATGGCCATT
TTTACCATCAGATTTTAAAACTGAAAATTGCCCATGGCAATCAATGTTCAATGAAGCAAA
TATTTGGTGTTGCGAAAACAAACAAAACTAA
>g5609.t3 Gene=g5609 Length=600
MSIAEAISNLVFVKITELADVKCSGNWMWAAKLPGEGAKMYDACKAMCEMMKELNIAVDG
GKDSLSMAARVSGETVKSPGTLVISTYAPCPDVTLRITPDLKAPSENKVGELIWINIDGK
FRLGASALAQSLKQQGNDSPDIENVIALKNAFNVTQKLLEKKLLLSGHDISDGGLIVCLI
EMAIGGMCGISVDLKNAMKIFKLEETSIENVLKILFAEECGWILECKSEHLKTILDEYKN
SNVNAIHIGKSKDFGMQSRIKIMFENFSIIDMTTLEAIKKWERTSFEFEKLQMNLKCAEE
EYNSYDLRSGPKYFLSFNPDDAIKLLKKPSDPWRVAVIREEGVNGDREMIAALLKANFEV
YDVTMSDLLDRKAFLENYRGIIFPGGFSYADTLGSAKGWAASIRFSDLLQPQFENFKIRK
DTFSLGVCNGCQLMSLIGWIDYEENSTNDDVPSIALLHNKSGRFECRWSTLKVASSNAIM
LRRMQGSVLGCWVAHGEGRFSFKNQQVLKNLKASNSIALHYVDDDMKPTEKYPLNPNGSV
EGIAAICSKDGRHLAMMPHPERCCEMFQWPFLPSDFKTENCPWQSMFNEANIWCCENKQN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g5609.t3 | CDD | cd02204 | PurL_repeat2 | 1 | 250 | 6.7078E-64 |
| 12 | g5609.t3 | CDD | cd01740 | GATase1_FGAR_AT | 335 | 587 | 1.50322E-103 |
| 10 | g5609.t3 | Coils | Coil | Coil | 288 | 308 | - |
| 9 | g5609.t3 | Gene3D | G3DSA:3.30.1330.10 | - | 1 | 90 | 3.3E-9 |
| 7 | g5609.t3 | Gene3D | G3DSA:3.90.650.10 | - | 99 | 275 | 7.1E-26 |
| 8 | g5609.t3 | Gene3D | G3DSA:3.40.50.880 | - | 276 | 595 | 8.1E-117 |
| 3 | g5609.t3 | PANTHER | PTHR10099 | PHOSPHORIBOSYLFORMYLGLYCINAMIDINE SYNTHASE | 1 | 594 | 5.6E-225 |
| 2 | g5609.t3 | Pfam | PF02769 | AIR synthase related protein, C-terminal domain | 124 | 250 | 3.2E-13 |
| 1 | g5609.t3 | Pfam | PF13507 | CobB/CobQ-like glutamine amidotransferase domain | 334 | 594 | 5.0E-101 |
| 14 | g5609.t3 | ProSiteProfiles | PS51273 | Glutamine amidotransferase type 1 domain profile. | 335 | 586 | 13.371 |
| 13 | g5609.t3 | SMART | SM01211 | GATase_5_2 | 332 | 594 | 6.3E-128 |
| 5 | g5609.t3 | SUPERFAMILY | SSF55326 | PurM N-terminal domain-like | 1 | 98 | 9.77E-25 |
| 4 | g5609.t3 | SUPERFAMILY | SSF56042 | PurM C-terminal domain-like | 112 | 305 | 5.38E-37 |
| 6 | g5609.t3 | SUPERFAMILY | SSF52317 | Class I glutamine amidotransferase-like | 330 | 594 | 9.17E-91 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5609/g5609.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5609.t3.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K23265 (phosphoribosylformylglycinamidine synthase subunit PurQ / glutaminase)
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.
