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.t26 TSS g1978.t26 14170301 14170301
chr_3 g1978 g1978.t26 isoform g1978.t26 14170363 14174042
chr_3 g1978 g1978.t26 exon g1978.t26.exon1 14170363 14170572
chr_3 g1978 g1978.t26 cds g1978.t26.CDS1 14170363 14170572
chr_3 g1978 g1978.t26 exon g1978.t26.exon2 14171681 14171783
chr_3 g1978 g1978.t26 cds g1978.t26.CDS2 14171681 14171783
chr_3 g1978 g1978.t26 exon g1978.t26.exon3 14172083 14172368
chr_3 g1978 g1978.t26 cds g1978.t26.CDS3 14172083 14172368
chr_3 g1978 g1978.t26 exon g1978.t26.exon4 14172471 14172610
chr_3 g1978 g1978.t26 cds g1978.t26.CDS4 14172471 14172610
chr_3 g1978 g1978.t26 exon g1978.t26.exon5 14172678 14172735
chr_3 g1978 g1978.t26 cds g1978.t26.CDS5 14172678 14172735
chr_3 g1978 g1978.t26 exon g1978.t26.exon6 14172832 14172973
chr_3 g1978 g1978.t26 cds g1978.t26.CDS6 14172832 14172973
chr_3 g1978 g1978.t26 exon g1978.t26.exon7 14173051 14173235
chr_3 g1978 g1978.t26 cds g1978.t26.CDS7 14173051 14173235
chr_3 g1978 g1978.t26 exon g1978.t26.exon8 14173296 14174042
chr_3 g1978 g1978.t26 cds g1978.t26.CDS8 14173296 14173536
chr_3 g1978 g1978.t26 TTS g1978.t26 14174000 14174000

Sequences

>g1978.t26 Gene=g1978 Length=1871
ATGGCATCATCAACGCTAAATGGAGAAATCAATAATATAAACTACACAGATGATGTTATT
TCCCGTAATCGTTCTGGATCTTTAACTGGATCAGTTAGTAGTTATTCAAACAAGGTTTTA
GTAGTACTCGGTGCACAATGGGGAGATGAAGGGAAGGGAAAAGTCGTGGATATGCTTTCA
GTCAACGCTGACGTTGTTTGTAGATGTCAAGGCGGTAATAATGCAGGACATACAGTTGTC
GTTGATGGAAAGGAATTTGATTTTCATCTTTTGCCGAGTGGAATAATCAATGAAAAAAGC
ATATCTATAATTGGCAATGGAGTTGTTGTACATCTTCCTGGCTTATTTGAGGAATTGGCA
AAGAATGAGGCAAAAGGCTTATCAGATTGGCAAAATCGTTTGATTGTCTCTGACAGAGCT
CATTTGGTTTTTGATTTTCATCAACAAGTTGATGGATTGCAAGAGGCAGAAAAATGTAGA
GAAGGAAAATCACTTGGCACAACGAAAAAGGGCATTGGTCCAGCCTATTCTTCGAAAGCC
ACACGTAATGGCATTCGAGTTGGAGACTTGCTTGGTGATTTCAACACATTTAGTGACAAA
TTTCGTTCAATTGTTGCTACTCATCAACGTTTGTTTCCTGGCTGTGTCGTTGATGTTGAA
GCAGAACTCACTCGATATCAACAGTATGCTGAAAAATTACGACCTTATGTGAAAGACACC
ATCTTTTATCTTCATTCTGCATTGCGAAATGGCAAGACTGTTTTGGTCGAAGGAGCAAAT
GCGGCAATGTTGGGTGATGTGACGAGTAGTAATTGCTCAATCGGTGGCGTTTTAACAGGT
CTCGGTTTGCCGCCAAAAGTTATTGGAGAAGTCATTGGTGTTGTTAAGTCATATACGACA
AGAGTCGGTGATGGACCATTCCCCACAGAATTAAAAGATGACATTGGTGAACTTTTACAA
ACGCGTGGTGGAGAAATTGGTGTCACAACAAAACGAAAACGTCGTTGTGGTTGGTTGGAT
TTACCTGTGTTACGATATACCTCACTTGTCAATGGTTATTCAGCAATTTGCTTAACGAAA
CTTGATATCCTTGATACTTTGCCTACAATTAAAATTGGCATCAATTATAAATTACATAAC
AAAACGATCTACAATTTTCCTGGATCTATTTCTGATTTGGCTCAAGTTGAGGTCGAATAT
GTTACACTCCCTGGTTGGCAACAATCGACTGCAAATATTCGCGACTTTCGTGACCTACCC
GAAAATGCACAAAACTATGTGCGATTTATTGAGAAGGATTTGGATGTTCCAATTAAGTGG
ATTGGAGTTGGAAAAGGGCGAGAATCAATTATTAAAGTATATTAAAAACATGTGCAGTAT
TGCACTTAAAATTACTTATTTTTTTAACTTGATAAATTCTTCAGAAACCAAATGAGATAT
AGCCCTTTCCTATTTTGTTAAAACACTCTCTTTTATAAAAGAGCCTTAAATATTTTTTTT
ATAAAATTAAATTGTAAATGATCATTTTGATTGTGAACAAGAATTAACATTTTGAGGGAG
CTTAATGGCTTTTAAATACTTAAATTTTTATCTTAATAGTAATAATTTAGCCAAGAACAG
TAATCGCACATGCACACAACAAACACTATACTTAAATTGCTATTACTTATAATTAGCATA
TGATACACTTTAAATAATCAATTCCAATGTGAAAAAAAATTTGAATGTTAAGAAAATATC
TTTGTTTGATGCAATGAACAGAAACTTATAGAGACGAGATATGCTAAACTTGCTATATTT
TAAATAAATTTTTAATTGTCCTTTAAAACAAAAAAAACTTTTATTTTAATTTAGAAAATA
TAATTAACAGT

>g1978.t26 Gene=g1978 Length=454
MASSTLNGEINNINYTDDVISRNRSGSLTGSVSSYSNKVLVVLGAQWGDEGKGKVVDMLS
VNADVVCRCQGGNNAGHTVVVDGKEFDFHLLPSGIINEKSISIIGNGVVVHLPGLFEELA
KNEAKGLSDWQNRLIVSDRAHLVFDFHQQVDGLQEAEKCREGKSLGTTKKGIGPAYSSKA
TRNGIRVGDLLGDFNTFSDKFRSIVATHQRLFPGCVVDVEAELTRYQQYAEKLRPYVKDT
IFYLHSALRNGKTVLVEGANAAMLGDVTSSNCSIGGVLTGLGLPPKVIGEVIGVVKSYTT
RVGDGPFPTELKDDIGELLQTRGGEIGVTTKRKRRCGWLDLPVLRYTSLVNGYSAICLTK
LDILDTLPTIKIGINYKLHNKTIYNFPGSISDLAQVEVEYVTLPGWQQSTANIRDFRDLP
ENAQNYVRFIEKDLDVPIKWIGVGKGRESIIKVY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g1978.t26 CDD cd03108 AdSS 38 451 6.20529E-175
7 g1978.t26 Gene3D G3DSA:3.40.440.10 Adenylosuccinate Synthetase 41 288 2.8E-98
8 g1978.t26 Gene3D G3DSA:1.10.300.10 Adenylosuccinate Synthetase 138 236 2.8E-98
6 g1978.t26 Gene3D G3DSA:3.90.170.10 Adenylosuccinate Synthetase 295 454 2.4E-66
4 g1978.t26 Hamap MF_00011 Adenylosuccinate synthetase [purA]. 1 454 162.304733
2 g1978.t26 PANTHER PTHR11846 ADENYLOSUCCINATE SYNTHETASE 28 452 2.8E-187
3 g1978.t26 PANTHER PTHR11846:SF2 ADENYLOSUCCINATE SYNTHETASE ISOZYME 1 28 452 2.8E-187
1 g1978.t26 Pfam PF00709 Adenylosuccinate synthetase 41 451 7.6E-165
10 g1978.t26 ProSitePatterns PS01266 Adenylosuccinate synthetase GTP-binding site. 46 53 -
11 g1978.t26 ProSitePatterns PS00513 Adenylosuccinate synthetase active site. 171 182 -
12 g1978.t26 SMART SM00788 adenylsucc_synt 39 452 5.8E-239
5 g1978.t26 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 37 452 6.16E-150
13 g1978.t26 TIGRFAM TIGR00184 purA: adenylosuccinate synthase 41 452 5.4E-144

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