General information for g9186.t2
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.t2 | TSS | g9186.t2 | 679859 | 679859 |
| chr_1 | g9186 | g9186.t2 | isoform | g9186.t2 | 679995 | 681517 |
| chr_1 | g9186 | g9186.t2 | exon | g9186.t2.exon1 | 679995 | 680060 |
| chr_1 | g9186 | g9186.t2 | cds | g9186.t2.CDS1 | 679995 | 680060 |
| chr_1 | g9186 | g9186.t2 | exon | g9186.t2.exon2 | 680537 | 681517 |
| chr_1 | g9186 | g9186.t2 | cds | g9186.t2.CDS2 | 680537 | 681517 |
| chr_1 | g9186 | g9186.t2 | TTS | g9186.t2 | 681754 | 681754 |
Sequences
>g9186.t2 Gene=g9186 Length=1047
ATGGCTCCCAACAATAATTTCATTCAATTAGCGGAACTTCCATCAAATACTACTTCTAAA
AAGTTCACTTTATGCAAGCCTGCGCCATTTTCAACAGATCCAGAAGCGATTGCAGAGCGA
GAAGCATGTGATTATAGTCACAGAATAACATTAGATATGGCAAGAAATGGAACTGCCAAT
CGTAAGATTCGTATCTACACTGATGGCATATATGATCTATTTCATCAAGGACATGCACGA
CAAATGATGCAAGCAAAGAATATTTTTCCCAATTCTGAAGTTTATCTCATCATTGGAGCA
TGCAGCGATGAATTGACTCATTCAATGAAAGGAAGAACAGTAATGACAGATGTTGAACGA
TACGAAGCTCTCAGACATTGCCGCTATGTTGATGAAATTATTCGCGATGCTCCATGGAAG
ATTACTGATGAGTTCATGGAGAAACACAAGATTGACTTTGTGGCTCAAGACTCGACGCCT
TACGTCACACAAGATTGTGACGATCTTTACAAAGAGATAAAAGAAAAGGGGTATTTTGTA
GCAACTGAAAGAACTGAAGGCGTGTCAACTTCAGGATTAATTGCACGTCTAGTTCGCGAT
TACGACATTTATGTTCGCAGAAATTTAGCTCGTGGATATTCAGCTAAAGAGCTGAATGTT
TCATTTTTGAAGGAGAAGAAATTCAGATTACAGAACAAACTTGATGAAATTAAAGACAAA
GGCAAAAAGGTAAAGGAAGATGTCATAATGAAATGGGAGGAAAAATCAAATGAACTTATG
AGAGCGTTCCTTATGTTATTTGGTCGAGATAATTGGAGTCAAAAATGGGACAAATCAAAA
GATGCTATTAAAGATGTAATCAGTTTACATCCAAAGAAGAGATCAAATTTCTTTAAATCA
ATTAAAGAACATGATGATGCATCGCCTCCCAAAAAAATTCCTCGCATTAAGCACTATTCA
ATCACATCCGATGAAGACGATGAAGAATTGAGCAATGGAAATAAAGGATTTCCTTCAATT
ACATTTACACTACCATCTTCGATTTAA
>g9186.t2 Gene=g9186 Length=348
MAPNNNFIQLAELPSNTTSKKFTLCKPAPFSTDPEAIAEREACDYSHRITLDMARNGTAN
RKIRIYTDGIYDLFHQGHARQMMQAKNIFPNSEVYLIIGACSDELTHSMKGRTVMTDVER
YEALRHCRYVDEIIRDAPWKITDEFMEKHKIDFVAQDSTPYVTQDCDDLYKEIKEKGYFV
ATERTEGVSTSGLIARLVRDYDIYVRRNLARGYSAKELNVSFLKEKKFRLQNKLDEIKDK
GKKVKEDVIMKWEEKSNELMRAFLMLFGRDNWSQKWDKSKDAIKDVISLHPKKRSNFFKS
IKEHDDASPPKKIPRIKHYSITSDEDDEELSNGNKGFPSITFTLPSSI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9186.t2 | CDD | cd02174 | CCT | 61 | 212 | 5.76502E-79 |
| 5 | g9186.t2 | Coils | Coil | Coil | 220 | 240 | - |
| 4 | g9186.t2 | Gene3D | G3DSA:3.40.50.620 | HUPs | 23 | 269 | 2.6E-90 |
| 2 | g9186.t2 | PANTHER | PTHR10739 | CYTIDYLYLTRANSFERASE | 18 | 326 | 5.9E-105 |
| 1 | g9186.t2 | Pfam | PF01467 | Cytidylyltransferase-like | 66 | 196 | 6.0E-25 |
| 3 | g9186.t2 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 63 | 196 | 8.44E-21 |
| 6 | g9186.t2 | TIGRFAM | TIGR00125 | cyt_tran_rel: cytidyltransferase-like domain | 64 | 132 | 4.2E-17 |
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.
