General information for g11988.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Trifunctional purine biosynthetic protein adenosine-3.
Parent gene
- The parent gene g11988 is located on chr_1: 20151772..20153547 (+ 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 | g11988 | g11988.t5 | isoform | g11988.t5 | 20148963 | 20150244 |
| chr_1 | g11988 | g11988.t5 | exon | g11988.t5.exon1 | 20148963 | 20150244 |
| chr_1 | g11988 | g11988.t5 | cds | g11988.t5.CDS1 | 20149247 | 20150242 |
| chr_1 | g11988 | g11988.t5 | TSS | g11988.t5 | NA | NA |
| chr_1 | g11988 | g11988.t5 | TTS | g11988.t5 | NA | NA |
Sequences
>g11988.t5 Gene=g11988 Length=1282
CAATTTCATATAAAAACAGTGGTGTGGATATAGAAGCTGGTGAATCTCTAGTACAAAGAA
TCAAGCCGCTTGCTCGAGGAACAAATCGAAGTGGCGTTATTGGTGAAATAGGCAGCTTTG
GTGGATTAATCAAATTAAACGACATTAAATATATCGATAAAAATGGTTTGGAGACAAATT
ATAAAGATCCTGTTTTAGTTCAGGGAACAGATGGGGTAGGAACTAAATTGAAAATTGCAG
AAGCACTCAATATTTGGGATACAATTGGAATTGATCTTGTCGCTATGTGTGTCAACGATG
TATTATGTAATGGAGCAGAACCTGTTGCATTTCTCGATTATATAGCTTGTGGCCTCCTCG
ATGTTCCATCTGCTGCAATGATTGTTAAAGGAATATCAGAAGCATGTCGTGAATCAAATT
GTGCACTAATAGGTGGTGAAACTGCAGAAATGCCTTCCATGTATGAAAAAGGAAAATATG
ATTTGGCAGGTTATTGCGTCGGAATTGTTGAATATGAAGATATTTTACCTAAAATGAATG
AAGTTCGTGAAGGTGATATTGTTGTTGCTTTACCATCAAGTGGTATTCATAGCAATGGTT
TCTCACTTGTCAATAAAATTCTTGAAAAATTGGATTTTAAATTGACTGATATTGCACCAT
TCAGTGATGATGGCAACTCATTTGGAAAAGAATTTTTGACACCAACAAAATTATATGTTT
CTAATGTAATGCCATTGTTGAGAAAAGGAAATGTTAAATCACTTGCTCACATTACAGGTG
GAGGATTATATGAAAATATTCCAAGAGCTCTACCATCAAATGTTTGTGTACAACTCGATG
CAGTTACATGGAAGTTACCAAAAGTGTTTGGTTGGTTAGCAGCACAAGGCAATATTGATG
AAAATGAAATGCTAAGAACTTTTAATTGTGGCATTGGAATGATCATTATTTTACCACGAA
ATAATATTGAATGGCAGTCGATTTCAGAAGCAAAATTGATTGGAAATGTTACAAAACGAG
AAACATCAGATTCACCACAAGTAATTGTGAAAAATTTCAAAGAAGTGCTCGAAAAAGAAA
TTTCACCATGGAAAAATGCATCAAACTCTACCACAATCAGTTATAAAGATAGTGGTGTGG
ATATTATTGCTGGAAATGCTCTTGTCGATAATATCAAGCCCTTTGCAAAATCAACCAATC
GCAAAGGAGTTCTAGGTGGTCTTGGTTCTTTTGGAGGTTTATTTAGATTAAAAGAACTTG
AGCAAGTTTACACTGATCCTGT
>g11988.t5 Gene=g11988 Length=332
MCVNDVLCNGAEPVAFLDYIACGLLDVPSAAMIVKGISEACRESNCALIGGETAEMPSMY
EKGKYDLAGYCVGIVEYEDILPKMNEVREGDIVVALPSSGIHSNGFSLVNKILEKLDFKL
TDIAPFSDDGNSFGKEFLTPTKLYVSNVMPLLRKGNVKSLAHITGGGLYENIPRALPSNV
CVQLDAVTWKLPKVFGWLAAQGNIDENEMLRTFNCGIGMIIILPRNNIEWQSISEAKLIG
NVTKRETSDSPQVIVKNFKEVLEKEISPWKNASNSTTISYKDSGVDIIAGNALVDNIKPF
AKSTNRKGVLGGLGSFGGLFRLKELEQVYTDP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g11988.t5 | CDD | cd02196 | PurM | 1 | 227 | 0.0e+00 |
| 9 | g11988.t5 | Gene3D | G3DSA:3.30.1330.10 | - | 1 | 81 | 0.0e+00 |
| 8 | g11988.t5 | Gene3D | G3DSA:3.90.650.10 | - | 82 | 271 | 0.0e+00 |
| 10 | g11988.t5 | Gene3D | G3DSA:3.30.1330.10 | - | 277 | 332 | 0.0e+00 |
| 4 | g11988.t5 | PANTHER | PTHR10520 | TRIFUNCTIONAL PURINE BIOSYNTHETIC PROTEIN ADENOSINE-3-RELATED | 1 | 260 | 0.0e+00 |
| 3 | g11988.t5 | PANTHER | PTHR10520 | TRIFUNCTIONAL PURINE BIOSYNTHETIC PROTEIN ADENOSINE-3-RELATED | 274 | 323 | 0.0e+00 |
| 2 | g11988.t5 | Pfam | PF00586 | AIR synthase related protein, N-terminal domain | 2 | 75 | 0.0e+00 |
| 1 | g11988.t5 | Pfam | PF02769 | AIR synthase related protein, C-terminal domain | 88 | 246 | 0.0e+00 |
| 6 | g11988.t5 | SUPERFAMILY | SSF55326 | PurM N-terminal domain-like | 1 | 80 | 0.0e+00 |
| 5 | g11988.t5 | SUPERFAMILY | SSF56042 | PurM C-terminal domain-like | 85 | 246 | 0.0e+00 |
| 7 | g11988.t5 | SUPERFAMILY | SSF55326 | PurM N-terminal domain-like | 277 | 324 | 8.2e-05 |
| 11 | g11988.t5 | TIGRFAM | TIGR00878 | purM: phosphoribosylformylglycinamidine cyclo-ligase | 1 | 230 | 0.0e+00 |
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:0004641 | phosphoribosylformylglycinamidine cyclo-ligase activity | MF |
| GO:0006189 | ‘de novo’ IMP biosynthetic process | 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