General information for g9187.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 g9187 is located on chr_1: 684531..688676 (- 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 | g9187 | g9187.t2 | TTS | g9187.t2 | 681702 | 681702 |
| chr_1 | g9187 | g9187.t2 | isoform | g9187.t2 | 682166 | 684667 |
| chr_1 | g9187 | g9187.t2 | exon | g9187.t2.exon1 | 682166 | 683188 |
| chr_1 | g9187 | g9187.t2 | cds | g9187.t2.CDS1 | 682166 | 683188 |
| chr_1 | g9187 | g9187.t2 | exon | g9187.t2.exon2 | 684536 | 684667 |
| chr_1 | g9187 | g9187.t2 | cds | g9187.t2.CDS2 | 684536 | 684667 |
| chr_1 | g9187 | g9187.t2 | TSS | g9187.t2 | 684941 | 684941 |
Sequences
>g9187.t2 Gene=g9187 Length=1155
ATGACATCACGCAAAAGGCCGCACGATTCATCAACAAATGGTATAAATCATGGTATGGAG
GAAATTGTTATTCAGAATGGAGAAAGTAGTTCAACTTTAAACTCATTTAAATACACACCA
CAAAATAGACCGACTTTATGCAAGCCTGCGCCATTTTCAACAGATCCAGAAGCGATTGCA
GAGCGAGAAGCATGTGATTATAGTCACAGAATAACATTAGATATGGCAAGAAATGGAACT
GCCAATCGTAAGATTCGTATCTACACTGATGGCATATATGATCTATTTCATCAAGGACAT
GCACGACAAATGATGCAAGCAAAGAATATTTTTCCCAATTCTGAAGTTTATCTCATCATT
GGAGCATGCAGCGATGAATTGACTCATTCAATGAAAGGAAGAACAGTAATGACAGATGTT
GAACGATACGAAGCTCTCAGACATTGCCGCTATGTTGATGAAATTATTCGCGATGCTCCA
TGGAAGATTACTGATGAGTTCATGGAGAAACACAAGATTGACTTTGTGGCTCAAGACTCG
ACGCCTTACGTCACACAAGATTGTGACGATCTATACAAAGAGATAAAAGAAAAGGGGTAT
TTTGTAGCAACTGAAAGAACTGAAGGCGTGTCAACATCAGCAATTGTAGCAAGAATTGTG
CGTGACTATGACATTTATGTTCGCAGAAATTTAGCTCGCGGATATTCAGCTAAAGAATTG
AATGTTTCATTTTTAAATGAAAAGAAATTCAGATTACAGAACAAACTTGATGAGATGAAA
AATAAAGGCAAGAAAGTGATTGATGATGTTAAAGGAGATTTCATTCAAAAATGGGAGGAA
AAATCAAATGAATTCATTCGAGCCTTTTTAATGCTTTTTGGTCGAGATAATTTGAGTCAA
ATTTGGGATAAATCAAAAGGAAGAATCAAAGATGCCTTGCATAAACGAAGCCCAAGCAGA
GGATCATTATCACAATCGGATGAAGATGAGGCTGAAACGAGCGATGGACATAATGGAAAT
AATTCACCACCTGCAAAAAGAATTCAAAGAGAAAGTACCTCACATTTATCTCTTACCTCC
GACGATGATGATGAAGAGTTTCTTTCGCCAACAGGTACCAACTTTCCAACACTTGAATTC
ACAAATTCCAAATAA
>g9187.t2 Gene=g9187 Length=384
MTSRKRPHDSSTNGINHGMEEIVIQNGESSSTLNSFKYTPQNRPTLCKPAPFSTDPEAIA
EREACDYSHRITLDMARNGTANRKIRIYTDGIYDLFHQGHARQMMQAKNIFPNSEVYLII
GACSDELTHSMKGRTVMTDVERYEALRHCRYVDEIIRDAPWKITDEFMEKHKIDFVAQDS
TPYVTQDCDDLYKEIKEKGYFVATERTEGVSTSAIVARIVRDYDIYVRRNLARGYSAKEL
NVSFLNEKKFRLQNKLDEMKNKGKKVIDDVKGDFIQKWEEKSNEFIRAFLMLFGRDNLSQ
IWDKSKGRIKDALHKRSPSRGSLSQSDEDEAETSDGHNGNNSPPAKRIQRESTSHLSLTS
DDDDEEFLSPTGTNFPTLEFTNSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9187.t2 | CDD | cd02174 | CCT | 83 | 234 | 1.58462E-79 |
| 6 | g9187.t2 | Coils | Coil | Coil | 242 | 262 | - |
| 5 | g9187.t2 | Gene3D | G3DSA:3.40.50.620 | HUPs | 45 | 295 | 1.7E-91 |
| 8 | g9187.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 312 | 335 | - |
| 10 | g9187.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 312 | 384 | - |
| 11 | g9187.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 336 | 355 | - |
| 9 | g9187.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 370 | 384 | - |
| 2 | g9187.t2 | PANTHER | PTHR10739:SF20 | CHOLINE-PHOSPHATE CYTIDYLYLTRANSFERASE B | 34 | 365 | 3.1E-114 |
| 3 | g9187.t2 | PANTHER | PTHR10739 | CYTIDYLYLTRANSFERASE | 34 | 365 | 3.1E-114 |
| 1 | g9187.t2 | Pfam | PF01467 | Cytidylyltransferase-like | 88 | 218 | 1.9E-25 |
| 4 | g9187.t2 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 85 | 219 | 1.2E-21 |
| 12 | g9187.t2 | TIGRFAM | TIGR00125 | cyt_tran_rel: cytidyltransferase-like domain | 86 | 154 | 4.9E-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.
