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.t28 TSS g1978.t28 14170301 14170301
chr_3 g1978 g1978.t28 isoform g1978.t28 14170363 14174042
chr_3 g1978 g1978.t28 exon g1978.t28.exon1 14170363 14170576
chr_3 g1978 g1978.t28 exon g1978.t28.exon2 14171681 14172368
chr_3 g1978 g1978.t28 cds g1978.t28.CDS1 14172052 14172368
chr_3 g1978 g1978.t28 exon g1978.t28.exon3 14172471 14172610
chr_3 g1978 g1978.t28 cds g1978.t28.CDS2 14172471 14172610
chr_3 g1978 g1978.t28 exon g1978.t28.exon4 14172678 14172731
chr_3 g1978 g1978.t28 cds g1978.t28.CDS3 14172678 14172731
chr_3 g1978 g1978.t28 exon g1978.t28.exon5 14172807 14172973
chr_3 g1978 g1978.t28 cds g1978.t28.CDS4 14172807 14172973
chr_3 g1978 g1978.t28 exon g1978.t28.exon6 14173051 14173235
chr_3 g1978 g1978.t28 cds g1978.t28.CDS5 14173051 14173235
chr_3 g1978 g1978.t28 exon g1978.t28.exon7 14173296 14174042
chr_3 g1978 g1978.t28 cds g1978.t28.CDS6 14173296 14173536
chr_3 g1978 g1978.t28 TTS g1978.t28 14174000 14174000

Sequences

>g1978.t28 Gene=g1978 Length=2195
ATGGCATCATCAACGCTAAATGGAGAAATCAATAATATAAACTACACAGATGATGTTATT
TCCCGTAATCGTTCTGGATCTTTAACTGGATCAGTTAGTAGTTATTCAAACAAGGTTTTA
GTAGTACTCGGTGCACAATGGGGAGATGAAGGGAAGGGAAAAGTCGTGGATATGCTTTCA
GTCAACGCTGACGTTGTTTGTAGATGTCAAGTGAGGCGGTAATAATGCAGGACATACAGT
TGTCGTTGATGGAAAGGAATTTGATTTTCATCTTTTGCCGAGTGGAATAATCAATGAAAA
AAGCATATCTATAATTGGTAAGTCATTCTCCTCCTCTCACAATGAATTATTTCAATTAAT
CAATTAGAGTATTATTGTTATTTGCGGAAACTATGGCAATTTGTAGCTGTCATTTTCACA
AATTGTCATAATATCATAATACTTTTTTTTTGTCTCTCGTTGTAACATTTATTAAAGCAG
CACAATAAATTGATTAAAAAGTTTTATCGATTCGAGATGGGACATACTGGCACATAAAAA
GAGAATTTTATTCCTATATCATGCTCAACTCTTTAATTAGGCCTCATGACTCACTCAATT
TTTAAATTTTCCTTAGGCAATGGAGTTGTTGTACATCTTCCTGGCTTATTTGAGGAATTG
GCAAAGAATGAGGCAAAAGGCTTATCAGATTGGCAAAATCGTTTGATTGTCTCTGACAGA
GCTCATTTGGTTTTTGATTTTCATCAACAAGTTGATGGATTGCAAGAGGCAGAAAAATGT
AGAGAAGGAAAATCACTTGGCACAACGAAAAAGGGCATTGGTCCAGCCTATTCTTCGAAA
GCCACACGTAATGGCATTCGAGTTGGAGACTTGCTTGGTGATTTCAACACATTTAGTGAC
AAATTTCGTTCAATTGTTGCTACTCATCAACGTTTGTTTCCTGGCTGTGTCGTTGATGTT
GAAGCAGAACTCACTCGATATCAACAGTATGCTGAAAAATTACGACCTTATGTGAAAGAC
ACCATCTTTTATCTTCATTCTGCATTGCGAAATGGCAAGACTGTTTTGGTCGAAGGAGCA
AATGCGGCAATGTTGGATATCGATTTTGGAACATATCCTTATGTGACGAGTAGTAATTGC
TCAATCGGTGGCGTTTTAACAGGTCTCGGTTTGCCGCCAAAAGTTATTGGAGAAGTCATT
GGTGTTGTTAAGTCATATACGACAAGAGTCGGTGATGGACCATTCCCCACAGAATTAAAA
GATGACATTGGTGAACTTTTACAAACGCGTGGTGGAGAAATTGGTGTCACAACAAAACGA
AAACGTCGTTGTGGTTGGTTGGATTTACCTGTGTTACGATATACCTCACTTGTCAATGGT
TATTCAGCAATTTGCTTAACGAAACTTGATATCCTTGATACTTTGCCTACAATTAAAATT
GGCATCAATTATAAATTACATAACAAAACGATCTACAATTTTCCTGGATCTATTTCTGAT
TTGGCTCAAGTTGAGGTCGAATATGTTACACTCCCTGGTTGGCAACAATCGACTGCAAAT
ATTCGCGACTTTCGTGACCTACCCGAAAATGCACAAAACTATGTGCGATTTATTGAGAAG
GATTTGGATGTTCCAATTAAGTGGATTGGAGTTGGAAAAGGGCGAGAATCAATTATTAAA
GTATATTAAAAACATGTGCAGTATTGCACTTAAAATTACTTATTTTTTTAACTTGATAAA
TTCTTCAGAAACCAAATGAGATATAGCCCTTTCCTATTTTGTTAAAACACTCTCTTTTAT
AAAAGAGCCTTAAATATTTTTTTTATAAAATTAAATTGTAAATGATCATTTTGATTGTGA
ACAAGAATTAACATTTTGAGGGAGCTTAATGGCTTTTAAATACTTAAATTTTTATCTTAA
TAGTAATAATTTAGCCAAGAACAGTAATCGCACATGCACACAACAAACACTATACTTAAA
TTGCTATTACTTATAATTAGCATATGATACACTTTAAATAATCAATTCCAATGTGAAAAA
AAATTTGAATGTTAAGAAAATATCTTTGTTTGATGCAATGAACAGAAACTTATAGAGACG
AGATATGCTAAACTTGCTATATTTTAAATAAATTTTTAATTGTCCTTTAAAACAAAAAAA
ACTTTTATTTTAATTTAGAAAATATAATTAACAGT

>g1978.t28 Gene=g1978 Length=367
MTHSIFKFSLGNGVVVHLPGLFEELAKNEAKGLSDWQNRLIVSDRAHLVFDFHQQVDGLQ
EAEKCREGKSLGTTKKGIGPAYSSKATRNGIRVGDLLGDFNTFSDKFRSIVATHQRLFPG
CVVDVEAELTRYQQYAEKLRPYVKDTIFYLHSALRNGKTVLVEGANAAMLDIDFGTYPYV
TSSNCSIGGVLTGLGLPPKVIGEVIGVVKSYTTRVGDGPFPTELKDDIGELLQTRGGEIG
VTTKRKRRCGWLDLPVLRYTSLVNGYSAICLTKLDILDTLPTIKIGINYKLHNKTIYNFP
GSISDLAQVEVEYVTLPGWQQSTANIRDFRDLPENAQNYVRFIEKDLDVPIKWIGVGKGR
ESIIKVY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g1978.t28 CDD cd03108 AdSS 10 364 2.20544E-138
8 g1978.t28 Gene3D G3DSA:3.40.440.10 Adenylosuccinate Synthetase 2 90 9.1E-10
7 g1978.t28 Gene3D G3DSA:3.40.440.10 Adenylosuccinate Synthetase 109 207 1.5E-28
6 g1978.t28 Gene3D G3DSA:3.90.170.10 Adenylosuccinate Synthetase 208 367 1.5E-66
4 g1978.t28 Hamap MF_00011 Adenylosuccinate synthetase [purA]. 1 367 141.656937
2 g1978.t28 PANTHER PTHR11846 ADENYLOSUCCINATE SYNTHETASE 10 365 2.5E-158
3 g1978.t28 PANTHER PTHR11846:SF2 ADENYLOSUCCINATE SYNTHETASE ISOZYME 1 10 365 2.5E-158
1 g1978.t28 Pfam PF00709 Adenylosuccinate synthetase 9 364 7.3E-139
10 g1978.t28 ProSitePatterns PS00513 Adenylosuccinate synthetase active site. 77 88 -
11 g1978.t28 SMART SM00788 adenylsucc_synt 1 365 3.9E-177
5 g1978.t28 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 8 365 8.18E-124
12 g1978.t28 TIGRFAM TIGR00184 purA: adenylosuccinate synthase 7 365 1.6E-123

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

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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