General information for g13068.t1
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 g13068 is located on chr_1: 27764424..27765218 (- 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 | g13068 | g13068.t1 | isoform | g13068.t1 | 27764424 | 27765218 |
| chr_1 | g13068 | g13068.t1 | exon | g13068.t1.exon1 | 27764424 | 27765218 |
| chr_1 | g13068 | g13068.t1 | cds | g13068.t1.CDS1 | 27764424 | 27765218 |
| chr_1 | g13068 | g13068.t1 | TSS | g13068.t1 | NA | NA |
| chr_1 | g13068 | g13068.t1 | TTS | g13068.t1 | NA | NA |
Sequences
>g13068.t1 Gene=g13068 Length=795
ATGACTTTAAAACCAGCACCATTTTCAAATGATCCTGAAGCAATAGCAGAACTAATTCAA
TGTGATTATTCATCAAAAATTACTTTCGAAATGGCAAAAAATCAACTCAATACTCGCAAA
ATTCGAATTTATTGTGATGGAATTTACGACATGTTTCACGCTGGTCATGCACGTCAATTT
TTGCAAGCTAAAAATATTTTTCCCAATTGTGAAACTTATTTGATTGTTGGCGTGTGCAAT
GATGAGCTAACTCATTCAAAGAAAGGACGAACTGTGATGAAAGATTTCGAAAGGTATGAA
ATGATTCGTCATTGTCGCTATGTTGATGAAGTTTTGCGTGATGCACCTTGGAAAATTACA
CCGGAATTTTTGTGCGAGCATAAAATTGATTTTGTTGCTCAAGATTCAACACCGTACATC
AGTGGTGATTGTGATGTTTATAAGGATGTCAAGGAAATGGAAATGTTCGTTGCAACACAG
CGAACTGATGGAATTTCAACCACTGACATCATCACGAGAATTATCAAAAATTATGAGATT
TATGTCAAGAGAAATTTATTGCGTGGCTATACAGCTAAAGAACTCAATGTTTCTTTTTTG
ACTGAGAAGAAAATTCAATTTGCTTCAAAATTTAGCGGACTTTTGGAAACAATTCAAAAT
GTAAAGTCAGAGATGACTAAAAAGTGGTTCAAATGGACAAGTCCTGCTTGGGTTGAAAAA
TCAATCAAATATGATGAAAATCAATTGGAAGAACTGCTATCGACTGATATTGGATCTAGT
GGAGATCATTTATGA
>g13068.t1 Gene=g13068 Length=264
MTLKPAPFSNDPEAIAELIQCDYSSKITFEMAKNQLNTRKIRIYCDGIYDMFHAGHARQF
LQAKNIFPNCETYLIVGVCNDELTHSKKGRTVMKDFERYEMIRHCRYVDEVLRDAPWKIT
PEFLCEHKIDFVAQDSTPYISGDCDVYKDVKEMEMFVATQRTDGISTTDIITRIIKNYEI
YVKRNLLRGYTAKELNVSFLTEKKIQFASKFSGLLETIQNVKSEMTKKWFKWTSPAWVEK
SIKYDENQLEELLSTDIGSSGDHL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g13068.t1 | CDD | cd02174 | CCT | 39 | 189 | 0 |
| 4 | g13068.t1 | Gene3D | G3DSA:3.40.50.620 | HUPs | 2 | 229 | 0 |
| 2 | g13068.t1 | PANTHER | PTHR10739 | CYTIDYLYLTRANSFERASE | 3 | 244 | 0 |
| 1 | g13068.t1 | Pfam | PF01467 | Cytidylyltransferase-like | 44 | 173 | 0 |
| 3 | g13068.t1 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 41 | 174 | 0 |
| 5 | g13068.t1 | TIGRFAM | TIGR00125 | cyt_tran_rel: cytidyltransferase-like domain | 42 | 111 | 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: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. There were no conditions that were differentially expressed