General information for g9186.t11
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.t11 | TSS | g9186.t11 | 679859 | 679859 |
| chr_1 | g9186 | g9186.t11 | isoform | g9186.t11 | 680537 | 681647 |
| chr_1 | g9186 | g9186.t11 | exon | g9186.t11.exon1 | 680537 | 681647 |
| chr_1 | g9186 | g9186.t11 | cds | g9186.t11.CDS1 | 680627 | 681517 |
| chr_1 | g9186 | g9186.t11 | TTS | g9186.t11 | 681754 | 681754 |
Sequences
>g9186.t11 Gene=g9186 Length=1111
ACTTTATGCAAGCCTGCGCCATTTTCAACAGATCCAGAAGCGATTGCAGAGCGAGAAGCA
TGTGATTATAGTCACAGAATAACATTAGATATGGCAAGAAATGGAACTGCCAATCGTAAG
ATTCGTATCTACACTGATGGCATATATGATCTATTTCATCAAGGACATGCACGACAAATG
ATGCAAGCAAAGAATATTTTTCCCAATTCTGAAGTTTATCTCATCATTGGAGCATGCAGC
GATGAATTGACTCATTCAATGAAAGGAAGAACAGTAATGACAGATGTTGAACGATACGAA
GCTCTCAGACATTGCCGCTATGTTGATGAAATTATTCGCGATGCTCCATGGAAGATTACT
GATGAGTTCATGGAGAAACACAAGATTGACTTTGTGGCTCAAGACTCGACGCCTTACGTC
ACACAAGATTGTGACGATCTTTACAAAGAGATAAAAGAAAAGGGGTATTTTGTAGCAACT
GAAAGAACTGAAGGCGTGTCAACTTCAGGATTAATTGCACGTCTAGTTCGCGATTACGAC
ATTTATGTTCGCAGAAATTTAGCTCGTGGATATTCAGCTAAAGAGCTGAATGTTTCATTT
TTGAAGGAGAAGAAATTCAGATTACAGAACAAACTTGATGAAATTAAAGACAAAGGCAAA
AAGGTAAAGGAAGATGTCATAATGAAATGGGAGGAAAAATCAAATGAACTTATGAGAGCG
TTCCTTATGTTATTTGGTCGAGATAATTGGAGTCAAAAATGGGACAAATCAAAAGATGCT
ATTAAAGATGTAATCAGTTTACATCCAAAGAAGAGATCAAATTTCTTTAAATCAATTAAA
GAACATGATGATGCATCGCCTCCCAAAAAAATTCCTCGCATTAAGCACTATTCAATCACA
TCCGATGAAGACGATGAAGAATTGAGCAATGGAAATAAAGGATTTCCTTCAATTACATTT
ACACTACCATCTTCGATTTAATCGTGTATAATCCTGTAAAAAAAATTTCGATGACTGTTT
TTTGAAATTCTTTTTGCTTGTTATCTGTGATAAGAACATAAACAAAAATTCAAAAAGTCC
TTTTTTGTGTGGTGTATATAAATGATTGATC
>g9186.t11 Gene=g9186 Length=296
MARNGTANRKIRIYTDGIYDLFHQGHARQMMQAKNIFPNSEVYLIIGACSDELTHSMKGR
TVMTDVERYEALRHCRYVDEIIRDAPWKITDEFMEKHKIDFVAQDSTPYVTQDCDDLYKE
IKEKGYFVATERTEGVSTSGLIARLVRDYDIYVRRNLARGYSAKELNVSFLKEKKFRLQN
KLDEIKDKGKKVKEDVIMKWEEKSNELMRAFLMLFGRDNWSQKWDKSKDAIKDVISLHPK
KRSNFFKSIKEHDDASPPKKIPRIKHYSITSDEDDEELSNGNKGFPSITFTLPSSI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9186.t11 | CDD | cd02174 | CCT | 9 | 160 | 1.39246E-78 |
| 5 | g9186.t11 | Coils | Coil | Coil | 168 | 188 | - |
| 4 | g9186.t11 | Gene3D | G3DSA:3.40.50.620 | HUPs | 1 | 217 | 6.9E-85 |
| 2 | g9186.t11 | PANTHER | PTHR10739 | CYTIDYLYLTRANSFERASE | 5 | 274 | 3.3E-99 |
| 1 | g9186.t11 | Pfam | PF01467 | Cytidylyltransferase-like | 14 | 144 | 4.2E-25 |
| 3 | g9186.t11 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 11 | 144 | 6.43E-21 |
| 6 | g9186.t11 | TIGRFAM | TIGR00125 | cyt_tran_rel: cytidyltransferase-like domain | 12 | 80 | 3.2E-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.
