Gene loci information

Transcript annotation

  • This transcript has been annotated as CTP synthase.

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_1 g11372 g11372.t5 TTS g11372.t5 15835744 15835744
chr_1 g11372 g11372.t5 isoform g11372.t5 15836585 15838559
chr_1 g11372 g11372.t5 exon g11372.t5.exon1 15836585 15836750
chr_1 g11372 g11372.t5 cds g11372.t5.CDS1 15836587 15836750
chr_1 g11372 g11372.t5 exon g11372.t5.exon2 15836816 15837087
chr_1 g11372 g11372.t5 cds g11372.t5.CDS2 15836816 15837087
chr_1 g11372 g11372.t5 exon g11372.t5.exon3 15837154 15837368
chr_1 g11372 g11372.t5 cds g11372.t5.CDS3 15837154 15837368
chr_1 g11372 g11372.t5 exon g11372.t5.exon4 15837441 15837572
chr_1 g11372 g11372.t5 cds g11372.t5.CDS4 15837441 15837572
chr_1 g11372 g11372.t5 exon g11372.t5.exon5 15837637 15837809
chr_1 g11372 g11372.t5 cds g11372.t5.CDS5 15837637 15837681
chr_1 g11372 g11372.t5 exon g11372.t5.exon6 15837879 15838559
chr_1 g11372 g11372.t5 TSS g11372.t5 15838618 15838618

Sequences

>g11372.t5 Gene=g11372 Length=1639
ATGTTAATAAGTAAAATAGTGAAACAGAAAGTTATTGGCATTAGAAAATTTAAAAGTAGT
GTTTGTGTTGTCGCAGAATTGTTTAAAAATTTTAGTCAAAGTTCTGAATTTAAAATGAAA
TACATTTTAGTAACTGGAGGTGTTATATCGGGAGTAGGAAAAGGTGTAATAGCAAGTTCA
TTTGGCACACTGTTAAATTGCAGTGGAATACATGTAACTTCATTAAAGATTGACCCTTAC
ATTAATATTGATGCAGGCACATTTTCTCCATATGAACATGGTAAGAAATTTACTATATCT
CTAATCTATTATTTAAAACTAGCATCTTACACGTGCCTGTTAACTGATCACATATTAAAT
TACATATCAGTTTCATAGAAAAAACTTTAAAATGGTCTTGAATAAATGCGCAAAAAATAA
ATTTGTATATTTTCTATTTTGGGCATCATTTTTTGAGATTGTGCCATAAAACTTTCTCTC
ATCATTTTTTTCTTATTCTTTTAAAAATAGGAGAAGTATACGTTTTGGATGATGGTGGAG
AAGTTGATTTAGATTTAGGAAATTATGAAAGATTTTTGGATGTAACATTACATCGTGACA
ATAATATAACAACTGGAAAAATTTACAAACAAGTCATTGAAAAAGAGCGTGAAGGTCAAT
ACCTAGGAAAGACTGTTCAAGTTGTGCCTCATATAACAGATGCTATTCAGGAATGGGTAG
AAAGGGTTGCACAACAGCCAGTCAAAGGTAGTGTAAAGCCAGAAGTATGTATTGTGGAGT
TAGGAGGCACTATCGGTGATATTGAAGGTATGCCATTTGTTGAGGCATTTCGTCAATTTC
AATTTAGAGTCAAGAGAGAAAATTTCTGTGTAGCTCATGTTTCATTAGTTCCTATGCCAC
GAGCAACAGGTGAACCAAAAACAAAACCAACACAAGCATCAGTTAGAGAATTAAGAGGTC
TTGGCTTATCACCTGATTTAATTGTTGTGCGATCAGAGAGAGCAATTGGACAAGAAGTAA
AAGATAAGATCAGTAATTTTTGTCATGTTGGTCCAGAACAAGTGATATGTGTTCATGATT
TAACTTCAATTTATCATGTTCCATTGCTTATGGATCAGAGTGGTGTGATGAAGTTTTTAA
CTGAACGTCTTCAATTAAATATTCCGTTGGGAAGACCTGAGAAACCATTAAGTAGATGGA
GAGATTTAGCACGACGTGTTGATAATTTGACTCGCGAAGTAACGATTGCACTTGTTGGTA
AATATACTCGTTTAGAAGACAGTTATGCATCAGTATCAAAATCATTACAACATGCCTCAA
TTCAAGCCGGTTATAAATTGAATTTGATATTTATTGAGGCATGTAACTTGGAAAGAGCTA
TGAAATCAGAAAATCCTGTTCTTTATCATGAAGCTTGGCAATCGCTATGCAAAAGTGATG
GAATTTTAGTTCCAGGTGGATTTGGACAACGCGGTATTGAGGGTAAAATTCGAGCTTGTC
AATGGGCTCGTGAAAAACGAAAGCCTTTTCTAGGTATTTGTTTAGGATTGCAAGCTGCAG
TAATTGAATATGCAAGAAATGTTTTAAAACTTGAAGACGCTAATTCTACTGAAATTAATT
CAGAAACAAAATACCCACT

>g11372.t5 Gene=g11372 Length=276
MPFVEAFRQFQFRVKRENFCVAHVSLVPMPRATGEPKTKPTQASVRELRGLGLSPDLIVV
RSERAIGQEVKDKISNFCHVGPEQVICVHDLTSIYHVPLLMDQSGVMKFLTERLQLNIPL
GRPEKPLSRWRDLARRVDNLTREVTIALVGKYTRLEDSYASVSKSLQHASIQAGYKLNLI
FIEACNLERAMKSENPVLYHEAWQSLCKSDGILVPGGFGQRGIEGKIRACQWAREKRKPF
LGICLGLQAAVIEYARNVLKLEDANSTEINSETKYP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g11372.t5 Gene3D G3DSA:3.40.50.300 - 1 139 0.000
8 g11372.t5 Gene3D G3DSA:3.40.50.880 - 141 276 0.000
3 g11372.t5 PANTHER PTHR11550 CTP SYNTHASE 1 276 0.000
4 g11372.t5 PANTHER PTHR11550:SF2 CTP SYNTHASE 2 1 276 0.000
2 g11372.t5 Pfam PF06418 CTP synthase N-terminus 1 116 0.000
1 g11372.t5 Pfam PF00117 Glutamine amidotransferase class-I 155 267 0.000
9 g11372.t5 ProSiteProfiles PS51273 Glutamine amidotransferase type 1 domain profile. 152 276 13.786
5 g11372.t5 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 1 117 0.000
6 g11372.t5 SUPERFAMILY SSF52317 Class I glutamine amidotransferase-like 142 276 0.000

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:0006221 pyrimidine nucleotide biosynthetic process BP
GO:0003883 CTP 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