General information for g11372.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as CTP synthase.
Parent gene
- The parent gene g11372 is located on chr_1: 15838559..15848627 (- strand)
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.t3 | TTS | g11372.t3 | 15835744 | 15835744 |
| chr_1 | g11372 | g11372.t3 | isoform | g11372.t3 | 15835766 | 15837436 |
| chr_1 | g11372 | g11372.t3 | exon | g11372.t3.exon1 | 15835766 | 15835955 |
| chr_1 | g11372 | g11372.t3 | cds | g11372.t3.CDS1 | 15835944 | 15835955 |
| chr_1 | g11372 | g11372.t3 | exon | g11372.t3.exon2 | 15836044 | 15836585 |
| chr_1 | g11372 | g11372.t3 | cds | g11372.t3.CDS2 | 15836044 | 15836585 |
| chr_1 | g11372 | g11372.t3 | exon | g11372.t3.exon3 | 15837179 | 15837436 |
| chr_1 | g11372 | g11372.t3 | cds | g11372.t3.CDS3 | 15837179 | 15837245 |
| chr_1 | g11372 | g11372.t3 | TSS | g11372.t3 | 15838166 | 15838166 |
Sequences
>g11372.t3 Gene=g11372 Length=990
GATTTTAACATTTATTTTTTCATTAAATTCTTGGTGAAGTACAAGTTTCTTTTTCTTATA
ATCGATAGGTGCGATCAGAGAGAGCAATTGGACAAGAAGTAAAAGATAAGATCAGTAATT
TTTGTCATGTTGGTCCAGAACAAGTGATATGTGTTCATGATTTAACTTCAATTTATCATG
TTCCATTGCTTATGGATCAGAGTGGTGTGATGAAGTTTTTAACTGAACGTCTTCAATTAA
ATATTCCGTTGGGAAGACTTGTAATTGATATGCCTGAACATCATCCCGGCCAAATGGGTG
GAACTATGCGTTTAGGAAAACGAACAACAATTTTTAAGGGTGATAGTATCATTAGAAAGC
TTTATGGCAACGTTGACTCGATCGATGAACGTCATCGTCATAGATATGAAGTTAACCCGA
ATTTTGTGGAACAATTAGAGGCGAGTGGACTTAAATTTGTTGGTCATGATTCAGAGAAAA
AAAGAATGGAAATTATGGAATTACAAAATCATCCATATTATGTTGCTACTCAATATCATC
CAGAATATTTGTCACGTCCGCTTAAACCTTCACCACCATTTGTTGGATTGATTTTAGCTT
CAGTCGGTAAATTACAGACATATCTAAATCAAGGTTGTAGATTATCACCAAGACAACTCA
GTGATGAGAGTTCAGATGAAGAAACATTGAGTGCGCTGGCAGCCTCAATAAAAAAATCTA
CCCTATTGAGTCCATCAAAGTTGAATAATGGACATTTAAATGTGAAACAAAATGGAAGTA
GTGGTTTATCTAATGATTCTTTATACATTTAAATATCTCAAATAGTTATTTCTTCCTGTC
ATCTTAATGTGGTGTCTTTGTCCTTTTTTAAAATAAAAAATTCAATTAGAGAATAAGCAA
AAAGATTCTTCCATAATAAACTTTCTATTCAAAAAATTTCGAATTCTGTTACTTGTAAAT
TGTTAAAATTAAAAAAATTGTAATTAATAT
>g11372.t3 Gene=g11372 Length=206
MDQSGVMKFLTERLQLNIPLGRLVIDMPEHHPGQMGGTMRLGKRTTIFKGDSIIRKLYGN
VDSIDERHRHRYEVNPNFVEQLEASGLKFVGHDSEKKRMEIMELQNHPYYVATQYHPEYL
SRPLKPSPPFVGLILASVGKLQTYLNQGCRLSPRQLSDESSDEETLSALAASIKKSTLLS
PSKLNNGHLNVKQNGSSGLSNDSLYI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11372.t3 | Gene3D | G3DSA:3.40.50.880 | - | 12 | 152 | 0 |
| 2 | g11372.t3 | PANTHER | PTHR11550 | CTP SYNTHASE | 23 | 160 | 0 |
| 3 | g11372.t3 | PANTHER | PTHR11550:SF2 | CTP SYNTHASE 2 | 23 | 160 | 0 |
| 1 | g11372.t3 | Pfam | PF00117 | Glutamine amidotransferase class-I | 20 | 134 | 0 |
| 4 | g11372.t3 | SUPERFAMILY | SSF52317 | Class I glutamine amidotransferase-like | 16 | 137 | 0 |
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. There were no conditions that were differentially expressed