Gene loci information

Transcript annotation

  • This transcript has been annotated as Adenylosuccinate 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_3 g1978 g1978.t17 TSS g1978.t17 14170301 14170301
chr_3 g1978 g1978.t17 isoform g1978.t17 14170363 14174042
chr_3 g1978 g1978.t17 exon g1978.t17.exon1 14170363 14170572
chr_3 g1978 g1978.t17 cds g1978.t17.CDS1 14170363 14170572
chr_3 g1978 g1978.t17 exon g1978.t17.exon2 14171681 14171783
chr_3 g1978 g1978.t17 cds g1978.t17.CDS2 14171681 14171783
chr_3 g1978 g1978.t17 exon g1978.t17.exon3 14172083 14172368
chr_3 g1978 g1978.t17 cds g1978.t17.CDS3 14172083 14172368
chr_3 g1978 g1978.t17 exon g1978.t17.exon4 14172471 14172610
chr_3 g1978 g1978.t17 cds g1978.t17.CDS4 14172471 14172610
chr_3 g1978 g1978.t17 exon g1978.t17.exon5 14172807 14172973
chr_3 g1978 g1978.t17 cds g1978.t17.CDS5 14172807 14172973
chr_3 g1978 g1978.t17 exon g1978.t17.exon6 14173051 14173235
chr_3 g1978 g1978.t17 cds g1978.t17.CDS6 14173051 14173235
chr_3 g1978 g1978.t17 exon g1978.t17.exon7 14173296 14174042
chr_3 g1978 g1978.t17 cds g1978.t17.CDS7 14173296 14173536
chr_3 g1978 g1978.t17 TTS g1978.t17 14174000 14174000

Sequences

>g1978.t17 Gene=g1978 Length=1838
ATGGCATCATCAACGCTAAATGGAGAAATCAATAATATAAACTACACAGATGATGTTATT
TCCCGTAATCGTTCTGGATCTTTAACTGGATCAGTTAGTAGTTATTCAAACAAGGTTTTA
GTAGTACTCGGTGCACAATGGGGAGATGAAGGGAAGGGAAAAGTCGTGGATATGCTTTCA
GTCAACGCTGACGTTGTTTGTAGATGTCAAGGCGGTAATAATGCAGGACATACAGTTGTC
GTTGATGGAAAGGAATTTGATTTTCATCTTTTGCCGAGTGGAATAATCAATGAAAAAAGC
ATATCTATAATTGGCAATGGAGTTGTTGTACATCTTCCTGGCTTATTTGAGGAATTGGCA
AAGAATGAGGCAAAAGGCTTATCAGATTGGCAAAATCGTTTGATTGTCTCTGACAGAGCT
CATTTGGTTTTTGATTTTCATCAACAAGTTGATGGATTGCAAGAGGCAGAAAAATGTAGA
GAAGGAAAATCACTTGGCACAACGAAAAAGGGCATTGGTCCAGCCTATTCTTCGAAAGCC
ACACGTAATGGCATTCGAGTTGGAGACTTGCTTGGTGATTTCAACACATTTAGTGACAAA
TTTCGTTCAATTGTTGCTACTCATCAACGTTTGTTTCCTGGCTGTGTCGTTGATGTTGAA
GCAGAACTCACTCGATATCAACAGTATGCTGAAAAATTACGACCTTATGTGAAAGACACC
ATCTTTTATCTTCATTCTGATATCGATTTTGGAACATATCCTTATGTGACGAGTAGTAAT
TGCTCAATCGGTGGCGTTTTAACAGGTCTCGGTTTGCCGCCAAAAGTTATTGGAGAAGTC
ATTGGTGTTGTTAAGTCATATACGACAAGAGTCGGTGATGGACCATTCCCCACAGAATTA
AAAGATGACATTGGTGAACTTTTACAAACGCGTGGTGGAGAAATTGGTGTCACAACAAAA
CGAAAACGTCGTTGTGGTTGGTTGGATTTACCTGTGTTACGATATACCTCACTTGTCAAT
GGTTATTCAGCAATTTGCTTAACGAAACTTGATATCCTTGATACTTTGCCTACAATTAAA
ATTGGCATCAATTATAAATTACATAACAAAACGATCTACAATTTTCCTGGATCTATTTCT
GATTTGGCTCAAGTTGAGGTCGAATATGTTACACTCCCTGGTTGGCAACAATCGACTGCA
AATATTCGCGACTTTCGTGACCTACCCGAAAATGCACAAAACTATGTGCGATTTATTGAG
AAGGATTTGGATGTTCCAATTAAGTGGATTGGAGTTGGAAAAGGGCGAGAATCAATTATT
AAAGTATATTAAAAACATGTGCAGTATTGCACTTAAAATTACTTATTTTTTTAACTTGAT
AAATTCTTCAGAAACCAAATGAGATATAGCCCTTTCCTATTTTGTTAAAACACTCTCTTT
TATAAAAGAGCCTTAAATATTTTTTTTATAAAATTAAATTGTAAATGATCATTTTGATTG
TGAACAAGAATTAACATTTTGAGGGAGCTTAATGGCTTTTAAATACTTAAATTTTTATCT
TAATAGTAATAATTTAGCCAAGAACAGTAATCGCACATGCACACAACAAACACTATACTT
AAATTGCTATTACTTATAATTAGCATATGATACACTTTAAATAATCAATTCCAATGTGAA
AAAAAATTTGAATGTTAAGAAAATATCTTTGTTTGATGCAATGAACAGAAACTTATAGAG
ACGAGATATGCTAAACTTGCTATATTTTAAATAAATTTTTAATTGTCCTTTAAAACAAAA
AAAACTTTTATTTTAATTTAGAAAATATAATTAACAGT

>g1978.t17 Gene=g1978 Length=443
MASSTLNGEINNINYTDDVISRNRSGSLTGSVSSYSNKVLVVLGAQWGDEGKGKVVDMLS
VNADVVCRCQGGNNAGHTVVVDGKEFDFHLLPSGIINEKSISIIGNGVVVHLPGLFEELA
KNEAKGLSDWQNRLIVSDRAHLVFDFHQQVDGLQEAEKCREGKSLGTTKKGIGPAYSSKA
TRNGIRVGDLLGDFNTFSDKFRSIVATHQRLFPGCVVDVEAELTRYQQYAEKLRPYVKDT
IFYLHSDIDFGTYPYVTSSNCSIGGVLTGLGLPPKVIGEVIGVVKSYTTRVGDGPFPTEL
KDDIGELLQTRGGEIGVTTKRKRRCGWLDLPVLRYTSLVNGYSAICLTKLDILDTLPTIK
IGINYKLHNKTIYNFPGSISDLAQVEVEYVTLPGWQQSTANIRDFRDLPENAQNYVRFIE
KDLDVPIKWIGVGKGRESIIKVY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g1978.t17 CDD cd03108 AdSS 38 440 9.79184E-173
8 g1978.t17 Gene3D G3DSA:3.40.440.10 Adenylosuccinate Synthetase 41 277 3.1E-94
9 g1978.t17 Gene3D G3DSA:1.10.300.10 Adenylosuccinate Synthetase 138 236 3.1E-94
7 g1978.t17 Gene3D G3DSA:3.90.170.10 Adenylosuccinate Synthetase 284 443 2.2E-66
5 g1978.t17 Hamap MF_00011 Adenylosuccinate synthetase [purA]. 1 443 154.831665
3 g1978.t17 PANTHER PTHR11846 ADENYLOSUCCINATE SYNTHETASE 29 441 3.1E-185
4 g1978.t17 PANTHER PTHR11846:SF2 ADENYLOSUCCINATE SYNTHETASE ISOZYME 1 29 441 3.1E-185
2 g1978.t17 Pfam PF00709 Adenylosuccinate synthetase 41 245 2.4E-77
1 g1978.t17 Pfam PF00709 Adenylosuccinate synthetase 246 440 2.2E-82
11 g1978.t17 ProSitePatterns PS01266 Adenylosuccinate synthetase GTP-binding site. 46 53 -
12 g1978.t17 ProSitePatterns PS00513 Adenylosuccinate synthetase active site. 171 182 -
13 g1978.t17 SMART SM00788 adenylsucc_synt 39 441 1.8E-236
6 g1978.t17 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 37 441 1.17E-148

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:0006164 purine nucleotide biosynthetic process BP
GO:0005525 GTP binding MF
GO:0004019 adenylosuccinate synthase activity MF

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