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.t25 TSS g1978.t25 14170301 14170301
chr_3 g1978 g1978.t25 isoform g1978.t25 14170363 14174042
chr_3 g1978 g1978.t25 exon g1978.t25.exon1 14170363 14170572
chr_3 g1978 g1978.t25 cds g1978.t25.CDS1 14170363 14170572
chr_3 g1978 g1978.t25 exon g1978.t25.exon2 14171681 14171783
chr_3 g1978 g1978.t25 cds g1978.t25.CDS2 14171681 14171783
chr_3 g1978 g1978.t25 exon g1978.t25.exon3 14172083 14172368
chr_3 g1978 g1978.t25 cds g1978.t25.CDS3 14172083 14172368
chr_3 g1978 g1978.t25 exon g1978.t25.exon4 14172471 14172610
chr_3 g1978 g1978.t25 cds g1978.t25.CDS4 14172471 14172610
chr_3 g1978 g1978.t25 exon g1978.t25.exon5 14172771 14172973
chr_3 g1978 g1978.t25 cds g1978.t25.CDS5 14172771 14172973
chr_3 g1978 g1978.t25 exon g1978.t25.exon6 14173051 14173235
chr_3 g1978 g1978.t25 cds g1978.t25.CDS6 14173051 14173235
chr_3 g1978 g1978.t25 exon g1978.t25.exon7 14173296 14174042
chr_3 g1978 g1978.t25 cds g1978.t25.CDS7 14173296 14173536
chr_3 g1978 g1978.t25 TTS g1978.t25 14174000 14174000

Sequences

>g1978.t25 Gene=g1978 Length=1874
ATGGCATCATCAACGCTAAATGGAGAAATCAATAATATAAACTACACAGATGATGTTATT
TCCCGTAATCGTTCTGGATCTTTAACTGGATCAGTTAGTAGTTATTCAAACAAGGTTTTA
GTAGTACTCGGTGCACAATGGGGAGATGAAGGGAAGGGAAAAGTCGTGGATATGCTTTCA
GTCAACGCTGACGTTGTTTGTAGATGTCAAGGCGGTAATAATGCAGGACATACAGTTGTC
GTTGATGGAAAGGAATTTGATTTTCATCTTTTGCCGAGTGGAATAATCAATGAAAAAAGC
ATATCTATAATTGGCAATGGAGTTGTTGTACATCTTCCTGGCTTATTTGAGGAATTGGCA
AAGAATGAGGCAAAAGGCTTATCAGATTGGCAAAATCGTTTGATTGTCTCTGACAGAGCT
CATTTGGTTTTTGATTTTCATCAACAAGTTGATGGATTGCAAGAGGCAGAAAAATGTAGA
GAAGGAAAATCACTTGGCACAACGAAAAAGGGCATTGGTCCAGCCTATTCTTCGAAAGCC
ACACGTAATGGCATTCGAGTTGGAGACTTGCTTGGTGATTTCAACACATTTAGTGACAAA
TTTCGTTCAATTGTTGCTACTCATCAACGTTTGTTTCCTGGCTGTGTCGTTGATGTTGAA
GCAGAACTCACTCGATATCAACAGTATGCTGAAAAATTACGACCTTATGTGAAAGACACC
ATCTTTTATCTTCATTCTGGAATTGTCAAAACAAATTATCATTGTCTTTTTTTAGATATC
GATTTTGGAACATATCCTTATGTGACGAGTAGTAATTGCTCAATCGGTGGCGTTTTAACA
GGTCTCGGTTTGCCGCCAAAAGTTATTGGAGAAGTCATTGGTGTTGTTAAGTCATATACG
ACAAGAGTCGGTGATGGACCATTCCCCACAGAATTAAAAGATGACATTGGTGAACTTTTA
CAAACGCGTGGTGGAGAAATTGGTGTCACAACAAAACGAAAACGTCGTTGTGGTTGGTTG
GATTTACCTGTGTTACGATATACCTCACTTGTCAATGGTTATTCAGCAATTTGCTTAACG
AAACTTGATATCCTTGATACTTTGCCTACAATTAAAATTGGCATCAATTATAAATTACAT
AACAAAACGATCTACAATTTTCCTGGATCTATTTCTGATTTGGCTCAAGTTGAGGTCGAA
TATGTTACACTCCCTGGTTGGCAACAATCGACTGCAAATATTCGCGACTTTCGTGACCTA
CCCGAAAATGCACAAAACTATGTGCGATTTATTGAGAAGGATTTGGATGTTCCAATTAAG
TGGATTGGAGTTGGAAAAGGGCGAGAATCAATTATTAAAGTATATTAAAAACATGTGCAG
TATTGCACTTAAAATTACTTATTTTTTTAACTTGATAAATTCTTCAGAAACCAAATGAGA
TATAGCCCTTTCCTATTTTGTTAAAACACTCTCTTTTATAAAAGAGCCTTAAATATTTTT
TTTATAAAATTAAATTGTAAATGATCATTTTGATTGTGAACAAGAATTAACATTTTGAGG
GAGCTTAATGGCTTTTAAATACTTAAATTTTTATCTTAATAGTAATAATTTAGCCAAGAA
CAGTAATCGCACATGCACACAACAAACACTATACTTAAATTGCTATTACTTATAATTAGC
ATATGATACACTTTAAATAATCAATTCCAATGTGAAAAAAAATTTGAATGTTAAGAAAAT
ATCTTTGTTTGATGCAATGAACAGAAACTTATAGAGACGAGATATGCTAAACTTGCTATA
TTTTAAATAAATTTTTAATTGTCCTTTAAAACAAAAAAAACTTTTATTTTAATTTAGAAA
ATATAATTAACAGT

>g1978.t25 Gene=g1978 Length=455
MASSTLNGEINNINYTDDVISRNRSGSLTGSVSSYSNKVLVVLGAQWGDEGKGKVVDMLS
VNADVVCRCQGGNNAGHTVVVDGKEFDFHLLPSGIINEKSISIIGNGVVVHLPGLFEELA
KNEAKGLSDWQNRLIVSDRAHLVFDFHQQVDGLQEAEKCREGKSLGTTKKGIGPAYSSKA
TRNGIRVGDLLGDFNTFSDKFRSIVATHQRLFPGCVVDVEAELTRYQQYAEKLRPYVKDT
IFYLHSGIVKTNYHCLFLDIDFGTYPYVTSSNCSIGGVLTGLGLPPKVIGEVIGVVKSYT
TRVGDGPFPTELKDDIGELLQTRGGEIGVTTKRKRRCGWLDLPVLRYTSLVNGYSAICLT
KLDILDTLPTIKIGINYKLHNKTIYNFPGSISDLAQVEVEYVTLPGWQQSTANIRDFRDL
PENAQNYVRFIEKDLDVPIKWIGVGKGRESIIKVY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g1978.t25 CDD cd03108 AdSS 38 452 4.68861E-175
7 g1978.t25 Gene3D G3DSA:3.40.440.10 Adenylosuccinate Synthetase 41 289 2.7E-100
8 g1978.t25 Gene3D G3DSA:1.10.300.10 Adenylosuccinate Synthetase 138 236 2.7E-100
6 g1978.t25 Gene3D G3DSA:3.90.170.10 Adenylosuccinate Synthetase 296 455 2.4E-66
4 g1978.t25 Hamap MF_00011 Adenylosuccinate synthetase [purA]. 1 455 163.815155
2 g1978.t25 PANTHER PTHR11846 ADENYLOSUCCINATE SYNTHETASE 28 453 4.6E-189
3 g1978.t25 PANTHER PTHR11846:SF2 ADENYLOSUCCINATE SYNTHETASE ISOZYME 1 28 453 4.6E-189
1 g1978.t25 Pfam PF00709 Adenylosuccinate synthetase 41 452 1.8E-165
10 g1978.t25 ProSitePatterns PS01266 Adenylosuccinate synthetase GTP-binding site. 46 53 -
11 g1978.t25 ProSitePatterns PS00513 Adenylosuccinate synthetase active site. 171 182 -
12 g1978.t25 SMART SM00788 adenylsucc_synt 39 453 6.8E-237
5 g1978.t25 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 37 453 3.82E-151
13 g1978.t25 TIGRFAM TIGR00184 purA: adenylosuccinate synthase 41 453 2.0E-145

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