General information for g9186.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Choline-phosphate cytidylyltransferase B.
Parent gene
- The parent gene g9186 is located on chr_1: 680537..681647 (+ 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 | g9186 | g9186.t10 | TSS | g9186.t10 | 679859 | 679859 |
| chr_1 | g9186 | g9186.t10 | isoform | g9186.t10 | 679995 | 681517 |
| chr_1 | g9186 | g9186.t10 | exon | g9186.t10.exon1 | 679995 | 680060 |
| chr_1 | g9186 | g9186.t10 | exon | g9186.t10.exon2 | 680537 | 680597 |
| chr_1 | g9186 | g9186.t10 | exon | g9186.t10.exon3 | 680700 | 681517 |
| chr_1 | g9186 | g9186.t10 | cds | g9186.t10.CDS1 | 680714 | 681517 |
| chr_1 | g9186 | g9186.t10 | TTS | g9186.t10 | 681754 | 681754 |
Sequences
>g9186.t10 Gene=g9186 Length=945
ATGGCTCCCAACAATAATTTCATTCAATTAGCGGAACTTCCATCAAATACTACTTCTAAA
AAGTTCACTTTATGCAAGCCTGCGCCATTTTCAACAGATCCAGAAGCGATTGCAGAGCGA
GAAGCATGACATGCACGACAAATGATGCAAGCAAAGAATATTTTTCCCAATTCTGAAGTT
TATCTCATCATTGGAGCATGCAGCGATGAATTGACTCATTCAATGAAAGGAAGAACAGTA
ATGACAGATGTTGAACGATACGAAGCTCTCAGACATTGCCGCTATGTTGATGAAATTATT
CGCGATGCTCCATGGAAGATTACTGATGAGTTCATGGAGAAACACAAGATTGACTTTGTG
GCTCAAGACTCGACGCCTTACGTCACACAAGATTGTGACGATCTTTACAAAGAGATAAAA
GAAAAGGGGTATTTTGTAGCAACTGAAAGAACTGAAGGCGTGTCAACTTCAGGATTAATT
GCACGTCTAGTTCGCGATTACGACATTTATGTTCGCAGAAATTTAGCTCGTGGATATTCA
GCTAAAGAGCTGAATGTTTCATTTTTGAAGGAGAAGAAATTCAGATTACAGAACAAACTT
GATGAAATTAAAGACAAAGGCAAAAAGGTAAAGGAAGATGTCATAATGAAATGGGAGGAA
AAATCAAATGAACTTATGAGAGCGTTCCTTATGTTATTTGGTCGAGATAATTGGAGTCAA
AAATGGGACAAATCAAAAGATGCTATTAAAGATGTAATCAGTTTACATCCAAAGAAGAGA
TCAAATTTCTTTAAATCAATTAAAGAACATGATGATGCATCGCCTCCCAAAAAAATTCCT
CGCATTAAGCACTATTCAATCACATCCGATGAAGACGATGAAGAATTGAGCAATGGAAAT
AAAGGATTTCCTTCAATTACATTTACACTACCATCTTCGATTTAA
>g9186.t10 Gene=g9186 Length=267
MMQAKNIFPNSEVYLIIGACSDELTHSMKGRTVMTDVERYEALRHCRYVDEIIRDAPWKI
TDEFMEKHKIDFVAQDSTPYVTQDCDDLYKEIKEKGYFVATERTEGVSTSGLIARLVRDY
DIYVRRNLARGYSAKELNVSFLKEKKFRLQNKLDEIKDKGKKVKEDVIMKWEEKSNELMR
AFLMLFGRDNWSQKWDKSKDAIKDVISLHPKKRSNFFKSIKEHDDASPPKKIPRIKHYSI
TSDEDDEELSNGNKGFPSITFTLPSSI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9186.t10 | Coils | Coil | Coil | 139 | 159 | - |
| 5 | g9186.t10 | Gene3D | G3DSA:3.40.50.620 | HUPs | 1 | 188 | 1.6E-68 |
| 2 | g9186.t10 | PANTHER | PTHR10739:SF20 | CHOLINE-PHOSPHATE CYTIDYLYLTRANSFERASE B | 1 | 231 | 9.4E-85 |
| 3 | g9186.t10 | PANTHER | PTHR10739 | CYTIDYLYLTRANSFERASE | 1 | 231 | 9.4E-85 |
| 1 | g9186.t10 | Pfam | PF01467 | Cytidylyltransferase-like | 3 | 115 | 1.0E-16 |
| 4 | g9186.t10 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 3 | 115 | 2.67E-12 |
| 7 | g9186.t10 | TIGRFAM | TIGR00125 | cyt_tran_rel: cytidyltransferase-like domain | 3 | 51 | 6.5E-8 |
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:0009058 | biosynthetic process | BP |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00968 (choline-phosphate cytidylyltransferase)
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.
