General information for g17053.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glutamine-dependent NAD(+) synthetase.
Parent gene
- The parent gene g17053 is located on chr_4: 12322973..12325635 (- 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_4 | g17053 | g17053.t1 | isoform | g17053.t1 | 12321475 | 12323816 |
| chr_4 | g17053 | g17053.t1 | exon | g17053.t1.exon1 | 12321475 | 12322589 |
| chr_4 | g17053 | g17053.t1 | cds | g17053.t1.CDS1 | 12321475 | 12322589 |
| chr_4 | g17053 | g17053.t1 | TTS | g17053.t1 | 12321495 | 12321495 |
| chr_4 | g17053 | g17053.t1 | exon | g17053.t1.exon2 | 12322654 | 12323334 |
| chr_4 | g17053 | g17053.t1 | cds | g17053.t1.CDS2 | 12322654 | 12323334 |
| chr_4 | g17053 | g17053.t1 | exon | g17053.t1.exon3 | 12323403 | 12323617 |
| chr_4 | g17053 | g17053.t1 | cds | g17053.t1.CDS3 | 12323403 | 12323617 |
| chr_4 | g17053 | g17053.t1 | exon | g17053.t1.exon4 | 12323671 | 12323816 |
| chr_4 | g17053 | g17053.t1 | cds | g17053.t1.CDS4 | 12323671 | 12323816 |
| chr_4 | g17053 | g17053.t1 | TSS | g17053.t1 | NA | NA |
Sequences
>g17053.t1 Gene=g17053 Length=2157
ATGGGTCGAAAAGTAACAGTTGCAGTATCTACATTGAGTCAATGGGCTTTGGATTTTGAA
GGCAACATGGCAAGAATTATACAATCAATTTTGGAAGCACGTGAACTTGGAGCTCTTTAT
CGTACTGGACCAGAATTGGAAATTACTGGTTACAGTTGTGAAGATCATTTTTATGAGCCA
GATACATTCTTGCATTCATGGGAAGTTCTTTTGCAAATTATGATGTCACCAGTTTGTGAA
AATATGCTGATTGATGTTGGAATGCCAGTTCAACATTCTAATGTTGCTTACAATTGTCGT
GTGGTTTTTTATAATAAAAAAATTATTCTCATTAGACCTAAAATGATGATGTGTGATGAT
GGAAACTATCGTGAATCTCGTTGGTTCACAGCATGGACAAAAGTAAGAAAAGTTGAAGAT
TATTTCCTTCCACGAATGATTGCGATAGCTACAAATCAACTTACGGTTCCTTTTGGTGAT
GGTGTGATTTCAACAAGAGAAACTTGCATTGGTTTTGAAATATGCGAAGAATTATGGAAT
CCACGTTCAACACATATCGATTTGGGGTTAGCAGGTGTTGAAATTATTGCCAATGGCAGT
AGCAGTTATATTCAACTACGTAAAGCTCATATCACAGCAGATTTAATAAAAAATGCAACA
TATAAAGCTGGTGGTGCTTATCTTTTTTCAAATTTACGTGGATGTGATGGACAACGAGTT
TGGTGGGGCGGAAATTCAGCAATTGGATTAAATGGTGAAATAATTGCAAAAAGCAAGCAA
TTTTCATTGTTGGATGTTGAAGTTACAGTAGCAACTATTGATTTAGAAGACATCAGAAGT
TATCGAATGGCTTTAAGATCACGTTGCACTTTTGGAGCTTCTAGTCCAGTTTATCCAAGA
ATTGCTGTCGATTGTGAACTTTCAAGTCGTCGCGATGTTTTGATTCCTGTGAATTTACCA
TTAGAATGGATTAATCATACTCCAGAAGAAGAAATTGCTATGGGTCCTGCATGCTGGTTG
TGGGATTATCTTCGTCGTTCAGGTCAAGGTGGTTATTTTTTGCCATTGTCAGGCGGTATT
GATTCTTGCAGTACAGCATGCATTGTGTATAACATGTGTCAAATGGTAGTTGATGCAATT
CAAAATGGCGAAGATGACGTTTTACGTGATGTAAGAAAAATCACAGCTGATCCAGAATTT
TCACCTCAAACAGCAGCTGAATTGTGCAATAAAATATTTGTGACTTGTTTTATGGGATCA
AAAAATTCTAGTAAAGAAACAAAAAATCGTGCAGCAGTTTTAGCAAATGAAATTGGAAGT
TATCATTTGGAACTCAATATTGACAGTGTTTTTGACACAATTTTATCAGTTTTCAAAGCA
GTCACTGGTTTTATACCAAAATATCGGGTTCAAGGTGGTTCCACAAGAGAAAATCTTGCA
TTGCAAAACATTCAAGCAAGAGTTCGAATGGTGCTGTCTTATCTTTTTGCACAATTAGTT
TTATGGACAAGAAATCGTCCAGGTGGTCTTTTAGTCCTTGGTTCTGCAAATGTTGATGAA
TCATTGCGTGGTTATATGACAAAATATGACTGCTCTTCAGCTGACGTAAATCCAATTGGT
GGAATTTCAAAAACTGACTTGAGAAGATTTTTAAATTATGCCATGAAAAAATATAATATA
CCAATTTTAAATGAAATATTTTTGGCTCAACCAACAGCTGAACTTGAGCCACTTCATGAA
GGACAATTAGCACAAACAGATGAGCAAGACATGGGAATGACTTATGCTGAATTGAGCGAA
TTTGGAAGATTGAGAAAACAAGCAGCATGTGGTCCATATTCTATGTTTTGTAAATTAGTG
GCAACATGGCGTAATGAATTTTCTCCAAAGGAAGTAAGTGACAAAGTTAAACATTTCTTC
CGTTGTTATGCAATAAATCGTCATAAAATGACTGTTTTAACTCCTTCTGTACATATGGAA
AGATATTCACCTGATGATAATCGATTTGATCATCGACCTTTCCTTTATCGAACTAATTGG
AGTTGGCAATTTAAAGCCATTGATAATGAGTTGGAAAGAATTATGCAAACTTCCACTAAA
GGAGCACAAAAACATGACAGAAATGAACATGAAAATAAAGAAAAAGAAGAAATTTAA
>g17053.t1 Gene=g17053 Length=718
MGRKVTVAVSTLSQWALDFEGNMARIIQSILEARELGALYRTGPELEITGYSCEDHFYEP
DTFLHSWEVLLQIMMSPVCENMLIDVGMPVQHSNVAYNCRVVFYNKKIILIRPKMMMCDD
GNYRESRWFTAWTKVRKVEDYFLPRMIAIATNQLTVPFGDGVISTRETCIGFEICEELWN
PRSTHIDLGLAGVEIIANGSSSYIQLRKAHITADLIKNATYKAGGAYLFSNLRGCDGQRV
WWGGNSAIGLNGEIIAKSKQFSLLDVEVTVATIDLEDIRSYRMALRSRCTFGASSPVYPR
IAVDCELSSRRDVLIPVNLPLEWINHTPEEEIAMGPACWLWDYLRRSGQGGYFLPLSGGI
DSCSTACIVYNMCQMVVDAIQNGEDDVLRDVRKITADPEFSPQTAAELCNKIFVTCFMGS
KNSSKETKNRAAVLANEIGSYHLELNIDSVFDTILSVFKAVTGFIPKYRVQGGSTRENLA
LQNIQARVRMVLSYLFAQLVLWTRNRPGGLLVLGSANVDESLRGYMTKYDCSSADVNPIG
GISKTDLRRFLNYAMKKYNIPILNEIFLAQPTAELEPLHEGQLAQTDEQDMGMTYAELSE
FGRLRKQAACGPYSMFCKLVATWRNEFSPKEVSDKVKHFFRCYAINRHKMTVLTPSVHME
RYSPDDNRFDHRPFLYRTNWSWQFKAIDNELERIMQTSTKGAQKHDRNEHENKEKEEI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g17053.t1 | CDD | cd07570 | GAT_Gln-NAD-synth | 6 | 287 | 2.25084E-84 |
| 11 | g17053.t1 | CDD | cd00553 | NAD_synthase | 328 | 650 | 1.1652E-88 |
| 9 | g17053.t1 | Gene3D | G3DSA:3.60.110.10 | - | 2 | 289 | 8.9E-78 |
| 8 | g17053.t1 | Gene3D | G3DSA:3.40.50.620 | HUPs | 328 | 696 | 2.1E-138 |
| 5 | g17053.t1 | Hamap | MF_02090 | Glutamine-dependent NAD(+) synthetase [nadE]. | 5 | 681 | 28.244102 |
| 13 | g17053.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 697 | 718 | - |
| 14 | g17053.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 699 | 718 | - |
| 3 | g17053.t1 | PANTHER | PTHR23090:SF9 | GLUTAMINE-DEPENDENT NAD(+) SYNTHETASE | 1 | 692 | 0.0 |
| 4 | g17053.t1 | PANTHER | PTHR23090 | NH 3 /GLUTAMINE-DEPENDENT NAD + SYNTHETASE | 1 | 692 | 0.0 |
| 10 | g17053.t1 | PIRSF | PIRSF006630 | NADS_GAT | 2 | 684 | 7.1E-154 |
| 1 | g17053.t1 | Pfam | PF00795 | Carbon-nitrogen hydrolase | 6 | 282 | 1.1E-40 |
| 2 | g17053.t1 | Pfam | PF02540 | NAD synthase | 339 | 601 | 4.5E-26 |
| 16 | g17053.t1 | ProSiteProfiles | PS50263 | Carbon-nitrogen hydrolase domain profile. | 5 | 275 | 39.739 |
| 7 | g17053.t1 | SUPERFAMILY | SSF56317 | Carbon-nitrogen hydrolase | 3 | 287 | 1.44E-45 |
| 6 | g17053.t1 | SUPERFAMILY | SSF52402 | Adenine nucleotide alpha hydrolases-like | 321 | 662 | 4.61E-62 |
| 15 | g17053.t1 | TIGRFAM | TIGR00552 | nadE: NAD+ synthetase | 331 | 650 | 4.6E-24 |
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:0006807 | nitrogen compound metabolic process | BP |
| GO:0005524 | ATP binding | MF |
| GO:0004359 | glutaminase activity | MF |
| GO:0003952 | NAD+ synthase (glutamine-hydrolyzing) activity | MF |
| GO:0005737 | cytoplasm | CC |
| GO:0009435 | NAD biosynthetic process | BP |
KEGG
Orthology
- This transcript has been annotated with K01950 (NAD+ synthase (glutamine-hydrolysing))
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.
