Gene loci information

Transcript annotation

  • This transcript has been annotated as Glutamine-dependent NAD(+) synthetase.

Parent gene

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.t6 TTS g17053.t6 12321398 12321398
chr_4 g17053 g17053.t6 isoform g17053.t6 12321475 12325635
chr_4 g17053 g17053.t6 exon g17053.t6.exon1 12321475 12322589
chr_4 g17053 g17053.t6 cds g17053.t6.CDS1 12321475 12322589
chr_4 g17053 g17053.t6 exon g17053.t6.exon2 12322654 12323334
chr_4 g17053 g17053.t6 cds g17053.t6.CDS2 12322654 12323334
chr_4 g17053 g17053.t6 exon g17053.t6.exon3 12323403 12323617
chr_4 g17053 g17053.t6 cds g17053.t6.CDS3 12323403 12323617
chr_4 g17053 g17053.t6 exon g17053.t6.exon4 12323671 12323850
chr_4 g17053 g17053.t6 cds g17053.t6.CDS4 12323671 12323816
chr_4 g17053 g17053.t6 exon g17053.t6.exon5 12325594 12325635
chr_4 g17053 g17053.t6 TSS g17053.t6 12325634 12325634

Sequences

>g17053.t6 Gene=g17053 Length=2233
AACAGTAAGTCTAAAGCAACCAAAGAGAAAACAACTCAAAAATTCTTCTCTTCTTAAGCA
TTTAAAAAAATCAAAAATGGGTCGAAAAGTAACAGTTGCAGTATCTACATTGAGTCAATG
GGCTTTGGATTTTGAAGGCAACATGGCAAGAATTATACAATCAATTTTGGAAGCACGTGA
ACTTGGAGCTCTTTATCGTACTGGACCAGAATTGGAAATTACTGGTTACAGTTGTGAAGA
TCATTTTTATGAGCCAGATACATTCTTGCATTCATGGGAAGTTCTTTTGCAAATTATGAT
GTCACCAGTTTGTGAAAATATGCTGATTGATGTTGGAATGCCAGTTCAACATTCTAATGT
TGCTTACAATTGTCGTGTGGTTTTTTATAATAAAAAAATTATTCTCATTAGACCTAAAAT
GATGATGTGTGATGATGGAAACTATCGTGAATCTCGTTGGTTCACAGCATGGACAAAAGT
AAGAAAAGTTGAAGATTATTTCCTTCCACGAATGATTGCGATAGCTACAAATCAACTTAC
GGTTCCTTTTGGTGATGGTGTGATTTCAACAAGAGAAACTTGCATTGGTTTTGAAATATG
CGAAGAATTATGGAATCCACGTTCAACACATATCGATTTGGGGTTAGCAGGTGTTGAAAT
TATTGCCAATGGCAGTAGCAGTTATATTCAACTACGTAAAGCTCATATCACAGCAGATTT
AATAAAAAATGCAACATATAAAGCTGGTGGTGCTTATCTTTTTTCAAATTTACGTGGATG
TGATGGACAACGAGTTTGGTGGGGCGGAAATTCAGCAATTGGATTAAATGGTGAAATAAT
TGCAAAAAGCAAGCAATTTTCATTGTTGGATGTTGAAGTTACAGTAGCAACTATTGATTT
AGAAGACATCAGAAGTTATCGAATGGCTTTAAGATCACGTTGCACTTTTGGAGCTTCTAG
TCCAGTTTATCCAAGAATTGCTGTCGATTGTGAACTTTCAAGTCGTCGCGATGTTTTGAT
TCCTGTGAATTTACCATTAGAATGGATTAATCATACTCCAGAAGAAGAAATTGCTATGGG
TCCTGCATGCTGGTTGTGGGATTATCTTCGTCGTTCAGGTCAAGGTGGTTATTTTTTGCC
ATTGTCAGGCGGTATTGATTCTTGCAGTACAGCATGCATTGTGTATAACATGTGTCAAAT
GGTAGTTGATGCAATTCAAAATGGCGAAGATGACGTTTTACGTGATGTAAGAAAAATCAC
AGCTGATCCAGAATTTTCACCTCAAACAGCAGCTGAATTGTGCAATAAAATATTTGTGAC
TTGTTTTATGGGATCAAAAAATTCTAGTAAAGAAACAAAAAATCGTGCAGCAGTTTTAGC
AAATGAAATTGGAAGTTATCATTTGGAACTCAATATTGACAGTGTTTTTGACACAATTTT
ATCAGTTTTCAAAGCAGTCACTGGTTTTATACCAAAATATCGGGTTCAAGGTGGTTCCAC
AAGAGAAAATCTTGCATTGCAAAACATTCAAGCAAGAGTTCGAATGGTGCTGTCTTATCT
TTTTGCACAATTAGTTTTATGGACAAGAAATCGTCCAGGTGGTCTTTTAGTCCTTGGTTC
TGCAAATGTTGATGAATCATTGCGTGGTTATATGACAAAATATGACTGCTCTTCAGCTGA
CGTAAATCCAATTGGTGGAATTTCAAAAACTGACTTGAGAAGATTTTTAAATTATGCCAT
GAAAAAATATAATATACCAATTTTAAATGAAATATTTTTGGCTCAACCAACAGCTGAACT
TGAGCCACTTCATGAAGGACAATTAGCACAAACAGATGAGCAAGACATGGGAATGACTTA
TGCTGAATTGAGCGAATTTGGAAGATTGAGAAAACAAGCAGCATGTGGTCCATATTCTAT
GTTTTGTAAATTAGTGGCAACATGGCGTAATGAATTTTCTCCAAAGGAAGTAAGTGACAA
AGTTAAACATTTCTTCCGTTGTTATGCAATAAATCGTCATAAAATGACTGTTTTAACTCC
TTCTGTACATATGGAAAGATATTCACCTGATGATAATCGATTTGATCATCGACCTTTCCT
TTATCGAACTAATTGGAGTTGGCAATTTAAAGCCATTGATAATGAGTTGGAAAGAATTAT
GCAAACTTCCACTAAAGGAGCACAAAAACATGACAGAAATGAACATGAAAATAAAGAAAA
AGAAGAAATTTAA

>g17053.t6 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.t6 CDD cd07570 GAT_Gln-NAD-synth 6 287 2.25084E-84
11 g17053.t6 CDD cd00553 NAD_synthase 328 650 1.1652E-88
9 g17053.t6 Gene3D G3DSA:3.60.110.10 - 2 289 8.9E-78
8 g17053.t6 Gene3D G3DSA:3.40.50.620 HUPs 328 696 2.1E-138
5 g17053.t6 Hamap MF_02090 Glutamine-dependent NAD(+) synthetase [nadE]. 5 681 28.244102
13 g17053.t6 MobiDBLite mobidb-lite consensus disorder prediction 697 718 -
14 g17053.t6 MobiDBLite mobidb-lite consensus disorder prediction 699 718 -
3 g17053.t6 PANTHER PTHR23090:SF9 GLUTAMINE-DEPENDENT NAD(+) SYNTHETASE 1 692 0.0
4 g17053.t6 PANTHER PTHR23090 NH 3 /GLUTAMINE-DEPENDENT NAD + SYNTHETASE 1 692 0.0
10 g17053.t6 PIRSF PIRSF006630 NADS_GAT 2 684 7.2E-154
1 g17053.t6 Pfam PF00795 Carbon-nitrogen hydrolase 6 282 1.1E-40
2 g17053.t6 Pfam PF02540 NAD synthase 339 601 4.5E-26
16 g17053.t6 ProSiteProfiles PS50263 Carbon-nitrogen hydrolase domain profile. 5 275 39.739
7 g17053.t6 SUPERFAMILY SSF56317 Carbon-nitrogen hydrolase 3 287 1.44E-45
6 g17053.t6 SUPERFAMILY SSF52402 Adenine nucleotide alpha hydrolases-like 321 662 4.61E-62
15 g17053.t6 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

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.

Raw TPM values