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.t19 TSS g1978.t19 14170301 14170301
chr_3 g1978 g1978.t19 isoform g1978.t19 14170363 14174042
chr_3 g1978 g1978.t19 exon g1978.t19.exon1 14170363 14170426
chr_3 g1978 g1978.t19 cds g1978.t19.CDS1 14170363 14170426
chr_3 g1978 g1978.t19 exon g1978.t19.exon2 14171697 14171783
chr_3 g1978 g1978.t19 cds g1978.t19.CDS2 14171697 14171783
chr_3 g1978 g1978.t19 exon g1978.t19.exon3 14172083 14172368
chr_3 g1978 g1978.t19 cds g1978.t19.CDS3 14172083 14172368
chr_3 g1978 g1978.t19 exon g1978.t19.exon4 14172471 14172610
chr_3 g1978 g1978.t19 cds g1978.t19.CDS4 14172471 14172610
chr_3 g1978 g1978.t19 exon g1978.t19.exon5 14172678 14172731
chr_3 g1978 g1978.t19 cds g1978.t19.CDS5 14172678 14172731
chr_3 g1978 g1978.t19 exon g1978.t19.exon6 14172807 14172973
chr_3 g1978 g1978.t19 cds g1978.t19.CDS6 14172807 14172973
chr_3 g1978 g1978.t19 exon g1978.t19.exon7 14173051 14173235
chr_3 g1978 g1978.t19 cds g1978.t19.CDS7 14173051 14173235
chr_3 g1978 g1978.t19 exon g1978.t19.exon8 14173296 14174042
chr_3 g1978 g1978.t19 cds g1978.t19.CDS8 14173296 14173536
chr_3 g1978 g1978.t19 TTS g1978.t19 14174000 14174000

Sequences

>g1978.t19 Gene=g1978 Length=1730
ATGGCATCATCAACGCTAAATGGAGAAATCAATAATATAAACTACACAGATGATGTTATT
TCCCGACATACAGTTGTCGTTGATGGAAAGGAATTTGATTTTCATCTTTTGCCGAGTGGA
ATAATCAATGAAAAAAGCATATCTATAATTGGCAATGGAGTTGTTGTACATCTTCCTGGC
TTATTTGAGGAATTGGCAAAGAATGAGGCAAAAGGCTTATCAGATTGGCAAAATCGTTTG
ATTGTCTCTGACAGAGCTCATTTGGTTTTTGATTTTCATCAACAAGTTGATGGATTGCAA
GAGGCAGAAAAATGTAGAGAAGGAAAATCACTTGGCACAACGAAAAAGGGCATTGGTCCA
GCCTATTCTTCGAAAGCCACACGTAATGGCATTCGAGTTGGAGACTTGCTTGGTGATTTC
AACACATTTAGTGACAAATTTCGTTCAATTGTTGCTACTCATCAACGTTTGTTTCCTGGC
TGTGTCGTTGATGTTGAAGCAGAACTCACTCGATATCAACAGTATGCTGAAAAATTACGA
CCTTATGTGAAAGACACCATCTTTTATCTTCATTCTGCATTGCGAAATGGCAAGACTGTT
TTGGTCGAAGGAGCAAATGCGGCAATGTTGGATATCGATTTTGGAACATATCCTTATGTG
ACGAGTAGTAATTGCTCAATCGGTGGCGTTTTAACAGGTCTCGGTTTGCCGCCAAAAGTT
ATTGGAGAAGTCATTGGTGTTGTTAAGTCATATACGACAAGAGTCGGTGATGGACCATTC
CCCACAGAATTAAAAGATGACATTGGTGAACTTTTACAAACGCGTGGTGGAGAAATTGGT
GTCACAACAAAACGAAAACGTCGTTGTGGTTGGTTGGATTTACCTGTGTTACGATATACC
TCACTTGTCAATGGTTATTCAGCAATTTGCTTAACGAAACTTGATATCCTTGATACTTTG
CCTACAATTAAAATTGGCATCAATTATAAATTACATAACAAAACGATCTACAATTTTCCT
GGATCTATTTCTGATTTGGCTCAAGTTGAGGTCGAATATGTTACACTCCCTGGTTGGCAA
CAATCGACTGCAAATATTCGCGACTTTCGTGACCTACCCGAAAATGCACAAAACTATGTG
CGATTTATTGAGAAGGATTTGGATGTTCCAATTAAGTGGATTGGAGTTGGAAAAGGGCGA
GAATCAATTATTAAAGTATATTAAAAACATGTGCAGTATTGCACTTAAAATTACTTATTT
TTTTAACTTGATAAATTCTTCAGAAACCAAATGAGATATAGCCCTTTCCTATTTTGTTAA
AACACTCTCTTTTATAAAAGAGCCTTAAATATTTTTTTTATAAAATTAAATTGTAAATGA
TCATTTTGATTGTGAACAAGAATTAACATTTTGAGGGAGCTTAATGGCTTTTAAATACTT
AAATTTTTATCTTAATAGTAATAATTTAGCCAAGAACAGTAATCGCACATGCACACAACA
AACACTATACTTAAATTGCTATTACTTATAATTAGCATATGATACACTTTAAATAATCAA
TTCCAATGTGAAAAAAAATTTGAATGTTAAGAAAATATCTTTGTTTGATGCAATGAACAG
AAACTTATAGAGACGAGATATGCTAAACTTGCTATATTTTAAATAAATTTTTAATTGTCC
TTTAAAACAAAAAAAACTTTTATTTTAATTTAGAAAATATAATTAACAGT

>g1978.t19 Gene=g1978 Length=407
MASSTLNGEINNINYTDDVISRHTVVVDGKEFDFHLLPSGIINEKSISIIGNGVVVHLPG
LFEELAKNEAKGLSDWQNRLIVSDRAHLVFDFHQQVDGLQEAEKCREGKSLGTTKKGIGP
AYSSKATRNGIRVGDLLGDFNTFSDKFRSIVATHQRLFPGCVVDVEAELTRYQQYAEKLR
PYVKDTIFYLHSALRNGKTVLVEGANAAMLDIDFGTYPYVTSSNCSIGGVLTGLGLPPKV
IGEVIGVVKSYTTRVGDGPFPTELKDDIGELLQTRGGEIGVTTKRKRRCGWLDLPVLRYT
SLVNGYSAICLTKLDILDTLPTIKIGINYKLHNKTIYNFPGSISDLAQVEVEYVTLPGWQ
QSTANIRDFRDLPENAQNYVRFIEKDLDVPIKWIGVGKGRESIIKVY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g1978.t19 CDD cd03108 AdSS 18 404 5.50965E-157
7 g1978.t19 Gene3D G3DSA:3.40.440.10 Adenylosuccinate Synthetase 23 241 6.8E-86
8 g1978.t19 Gene3D G3DSA:1.10.300.10 Adenylosuccinate Synthetase 84 182 6.8E-86
6 g1978.t19 Gene3D G3DSA:3.90.170.10 Adenylosuccinate Synthetase 248 407 1.9E-66
4 g1978.t19 Hamap MF_00011 Adenylosuccinate synthetase [purA]. 1 407 153.518936
2 g1978.t19 PANTHER PTHR11846 ADENYLOSUCCINATE SYNTHETASE 22 405 1.6E-176
3 g1978.t19 PANTHER PTHR11846:SF2 ADENYLOSUCCINATE SYNTHETASE ISOZYME 1 22 405 1.6E-176
1 g1978.t19 Pfam PF00709 Adenylosuccinate synthetase 23 404 7.4E-152
10 g1978.t19 ProSitePatterns PS00513 Adenylosuccinate synthetase active site. 117 128 -
11 g1978.t19 SMART SM00788 adenylsucc_synt 15 405 1.4E-209
5 g1978.t19 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 23 405 8.39E-136
12 g1978.t19 TIGRFAM TIGR00184 purA: adenylosuccinate synthase 23 405 5.6E-135

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