General information for g9187.t4
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.t4 | isoform | g9187.t4 | 681647 | 688676 |
| chr_1 | g9187 | g9187.t4 | exon | g9187.t4.exon1 | 681647 | 683188 |
| chr_1 | g9187 | g9187.t4 | cds | g9187.t4.CDS1 | 682166 | 683098 |
| chr_1 | g9187 | g9187.t4 | exon | g9187.t4.exon2 | 684531 | 684697 |
| chr_1 | g9187 | g9187.t4 | exon | g9187.t4.exon3 | 688228 | 688676 |
| chr_1 | g9187 | g9187.t4 | TSS | g9187.t4 | NA | NA |
| chr_1 | g9187 | g9187.t4 | TTS | g9187.t4 | NA | NA |
Sequences
>g9187.t4 Gene=g9187 Length=2158
TTTTCTCTGAAAAAACTATTCACTTGTTGATTTATCTCTCTACTATAATGTATTGATCTT
GAAAGCTCAATTCGTCAACTTTTTATTATTATGAGATATAAATAAACTTATTAAATAAAG
TAAAAAGAAAGCATCACATGAAGATCACATACTACTTCTCTTCTTTTTATTCTAACTGTT
ATTTCAGTTTTAAATTTTTTATAGTTTGACTTTCCCTTCGACATAAAAAATAGAAAAAAT
TTGACAATATTCATTCACGTGAATTTTTAGTAAAATACATTGTATTTTAATAGTTTGAGT
TATTGAAAAATACTTAAAAAATAGACAAGTGTCTGAAACATAGAAATAATATATTATTTA
AGTGTAACAATTGGAATATTCAAAGAAGATTTCAGTTTTGATAAGTTGAAAAATTTTTAT
TAACAAGTCGGAAAAAAAAAATTTTGTCTTAAAAAAAAAACCGGTAAGAGTAGGCGAAAA
TGACATCACGCAAAAGGCCGCACGATTCATCAACAAATGGTATAAATCATGGTATGGAGG
AAATTGTTATTCAGAATGGAGAAAGTAGTTCAACTTTAAACTCATTTAAATACACACCAC
AAAATAGACCGGTAAGACTTTATGCAAGCCTGCGCCATTTTCAACAGATCCAGAAGCGAT
TGCAGAGCGAGAAGCATGTGATTATAGTCACAGAATAACATTAGATATGGCAAGAAATGG
AACTGCCAATCGTAAGATTCGTATCTACACTGATGGCATATATGATCTATTTCATCAAGG
ACATGCACGACAAATGATGCAAGCAAAGAATATTTTTCCCAATTCTGAAGTTTATCTCAT
CATTGGAGCATGCAGCGATGAATTGACTCATTCAATGAAAGGAAGAACAGTAATGACAGA
TGTTGAACGATACGAAGCTCTCAGACATTGCCGCTATGTTGATGAAATTATTCGCGATGC
TCCATGGAAGATTACTGATGAGTTCATGGAGAAACACAAGATTGACTTTGTGGCTCAAGA
CTCGACGCCTTACGTCACACAAGATTGTGACGATCTATACAAAGAGATAAAAGAAAAGGG
GTATTTTGTAGCAACTGAAAGAACTGAAGGCGTGTCAACATCAGCAATTGTAGCAAGAAT
TGTGCGTGACTATGACATTTATGTTCGCAGAAATTTAGCTCGCGGATATTCAGCTAAAGA
ATTGAATGTTTCATTTTTAAATGAAAAGAAATTCAGATTACAGAACAAACTTGATGAGAT
GAAAAATAAAGGCAAGAAAGTGATTGATGATGTTAAAGGAGATTTCATTCAAAAATGGGA
GGAAAAATCAAATGAATTCATTCGAGCCTTTTTAATGCTTTTTGGTCGAGATAATTTGAG
TCAAATTTGGGATAAATCAAAAGGAAGAATCAAAGATGCCTTGCATAAACGAAGCCCAAG
CAGAGGATCATTATCACAATCGGATGAAGATGAGGCTGAAACGAGCGATGGACATAATGG
AAATAATTCACCACCTGCAAAAAGAATTCAAAGAGAAAGTACCTCACATTTATCTCTTAC
CTCCGACGATGATGATGAAGAGTTTCTTTCGCCAACAGGTACCAACTTTCCAACACTTGA
ATTCACAAATTCCAAATAATTTTGTGCAAATGTCATTGACATATAAGTGTCGCATTAATT
GTAATTCTTAATTTATTGTTTTATTTTAAAAATAATGACTCGAATCTGATTTTATACGTT
TGCTGACAATAGACCAATATAATTGATTTTGCTTACTTTATAGATTATGTAGACATAATT
ATAATATTCGCATTAGTATGTATTTTTCACTTTCATTACATTATATATTAGCTTTATTAT
AGATGAAAAAATGTCAGACAACTACTGTCAGAGATAGTTTTATGATAAAAACTATGTGAT
TTTCACTATAAAAATTGTTTTTAGCAAACCATATAAAATTTTCTTTATGAAATAAATTAT
GTTAAAATTCGAAGTAAATTGTAGACTAAAAAACTGAAAAAGATGGTTAAAAATACATAA
ACTCAAAATTAAGAAATAAAGTGATTATTTATTGATAACATAAAGTGATGTTTATGTAAA
ATGAAATATTTTGAAGTTTTAATTTTTAATTTCTACTACCTACTCTTTTTTTTCATCG
>g9187.t4 Gene=g9187 Length=310
MARNGTANRKIRIYTDGIYDLFHQGHARQMMQAKNIFPNSEVYLIIGACSDELTHSMKGR
TVMTDVERYEALRHCRYVDEIIRDAPWKITDEFMEKHKIDFVAQDSTPYVTQDCDDLYKE
IKEKGYFVATERTEGVSTSAIVARIVRDYDIYVRRNLARGYSAKELNVSFLNEKKFRLQN
KLDEMKNKGKKVIDDVKGDFIQKWEEKSNEFIRAFLMLFGRDNLSQIWDKSKGRIKDALH
KRSPSRGSLSQSDEDEAETSDGHNGNNSPPAKRIQRESTSHLSLTSDDDDEEFLSPTGTN
FPTLEFTNSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9187.t4 | CDD | cd02174 | CCT | 9 | 160 | 8.15285E-80 |
| 6 | g9187.t4 | Coils | Coil | Coil | 168 | 188 | - |
| 5 | g9187.t4 | Gene3D | G3DSA:3.40.50.620 | HUPs | 1 | 221 | 4.2E-86 |
| 9 | g9187.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 238 | 310 | - |
| 10 | g9187.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 238 | 261 | - |
| 8 | g9187.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 262 | 281 | - |
| 11 | g9187.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 296 | 310 | - |
| 2 | g9187.t4 | PANTHER | PTHR10739:SF20 | CHOLINE-PHOSPHATE CYTIDYLYLTRANSFERASE B | 2 | 291 | 5.1E-108 |
| 3 | g9187.t4 | PANTHER | PTHR10739 | CYTIDYLYLTRANSFERASE | 2 | 291 | 5.1E-108 |
| 1 | g9187.t4 | Pfam | PF01467 | Cytidylyltransferase-like | 14 | 144 | 1.2E-25 |
| 4 | g9187.t4 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 11 | 145 | 8.44E-22 |
| 12 | g9187.t4 | TIGRFAM | TIGR00125 | cyt_tran_rel: cytidyltransferase-like domain | 12 | 80 | 3.5E-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.
