General information for g10409.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Choline kinase A2.
Parent gene
- The parent gene g10409 is located on chr_1: 9597654..9598377 (+ 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 | g10409 | g10409.t2 | isoform | g10409.t2 | 9594539 | 9597654 |
| chr_1 | g10409 | g10409.t2 | exon | g10409.t2.exon1 | 9594539 | 9594878 |
| chr_1 | g10409 | g10409.t2 | exon | g10409.t2.exon2 | 9596116 | 9596228 |
| chr_1 | g10409 | g10409.t2 | cds | g10409.t2.CDS1 | 9596137 | 9596228 |
| chr_1 | g10409 | g10409.t2 | exon | g10409.t2.exon3 | 9596291 | 9596567 |
| chr_1 | g10409 | g10409.t2 | cds | g10409.t2.CDS2 | 9596291 | 9596567 |
| chr_1 | g10409 | g10409.t2 | exon | g10409.t2.exon4 | 9596635 | 9597654 |
| chr_1 | g10409 | g10409.t2 | cds | g10409.t2.CDS3 | 9596635 | 9597654 |
| chr_1 | g10409 | g10409.t2 | TSS | g10409.t2 | NA | NA |
| chr_1 | g10409 | g10409.t2 | TTS | g10409.t2 | NA | NA |
Sequences
>g10409.t2 Gene=g10409 Length=1750
TTATAAAAATTCTTTTCATAAACACTTCAAAAGTGATTTTTGAGAATAAAAGTTTCTATT
TATCGACAACAAAATAAAAACTGAAAATATGTGAATTTCGTTACTAAACATACTGACATT
TAAAGACAAGAAAAATGCGCTTCAATCGCCGACTATTCTATGATGTACACTTTTCAGTAT
CTTTTTTTTTTGTCTCACTCTAATCTCATTTCTTCTCAGTAAAAAAGTAGAGAACAAATT
GAATGGTTGTGTTCATAAACTAGTCTGTTTTAAAATTTTCAAAAAATAAATAACCTGCTT
AATGCGAAGATTTCTATATCATCTATATGAAATAGTCAAAGCTACCAGGTCTAATAGTGA
CATGAGAGACGTTGCAACAAGAATTTGTCGCGAATACTTATCAGGAGCATGGAAGACAAT
ATCACAAGATGAAATTCAAGTCAAGCGAATGAGTGGCGGTCTCTCAAATTTTTTATACTA
TGTAAGTTTGCCAAATCGAAATGATTTTGGTGAAAATACAAATTTATCTAAACGGACACG
TAAAGATAGTTATCATAGCTCTATGGAACCTACTAAAGTATTGTTAAGGATTTATGGTCA
GAGTCACGGTGAGCATGCTCTTGAGACAATGCTTACAGAATCTGTTGTGTTCGCATTATT
GAGTGAAAGACAATTAGGACCAAAATTACATGGAATTTTTCCCGGAGGAAGAATTGAACA
ATACATTCCAGCTCGTTCTTTGACAACTGCCGAATTATCCGATAGCAAAATTTCTGCAAA
AATTGCTGAAAAAATGGGACAAATACATAGCTTACACATTCCTGTTAGCAAAGAGGCTGA
TTGGATTTTCAATACGATTAATAGATGGTTAAACAATGTTGATGCAATTATGAATGATAT
CAAAAACAATAACAATGATGATGACCAAGTTCCGGAAATTCAGAAACGATTAAGCAAAAT
TGATTTAAGGCATGAAGCGAATTGGTTAAAAAAAATTGCAGAGACCGAGTCGTATCCAGT
TGTCTTTTGTCATAATGATCTTCAAGAAGGTAACATACTGTTTCGTCAAAATAACTTTGT
TCCACCTGATGATTTAGTAGAAACACTTGATGAAGAACTTCACAAAATTGATGACCTCTC
ACCAATGCTTATCTCATGTCCAAAAACGAAAATAGAAAATGTTGAAAACACAAAAGTACA
GGATACAATTAATGGAAATTCGCGTAAAAGATCGTTGGTCGATTCGAGTATTGACAACGA
AGAAATTTCAAGTAACTTTGATAACGATTGTAAGAAAGACGACCCAGAATTAATGATAAT
AGATTTTGAATATTGTGCATATAATTATAGAGGATTTGATATTGCAAATCACTTTTTAGA
ATGGACTTACGATTATACCAACGAAAAATTTCCATTCTTTTTCTATCGTCCCGAAAATTA
TCCGAACGAAAAGCAAATAGATAATTTTATTGATTCATATTTGAAAAATATCAATATGGA
TGCATTTGATAATAAAATGACATTTGTAGAGGAGAAGAAACAACTGCTTGAAGAAATTAA
CCTCTTCACAATCGCTTCACATCTATTTTGGACAATTTGGGCTATTGTAAATAGCAGTCA
AGAAATAGAATTCGGTTACTGGGAATATGCGGATATCAGACTAAAAGAATATTTTAATGC
AAAAGAAAAGTACTTACAATTGAAGCCTATGGCAAAAGAAATATATGATATGCAAATTAG
ACGAAAGTAA
>g10409.t2 Gene=g10409 Length=462
MRDVATRICREYLSGAWKTISQDEIQVKRMSGGLSNFLYYVSLPNRNDFGENTNLSKRTR
KDSYHSSMEPTKVLLRIYGQSHGEHALETMLTESVVFALLSERQLGPKLHGIFPGGRIEQ
YIPARSLTTAELSDSKISAKIAEKMGQIHSLHIPVSKEADWIFNTINRWLNNVDAIMNDI
KNNNNDDDQVPEIQKRLSKIDLRHEANWLKKIAETESYPVVFCHNDLQEGNILFRQNNFV
PPDDLVETLDEELHKIDDLSPMLISCPKTKIENVENTKVQDTINGNSRKRSLVDSSIDNE
EISSNFDNDCKKDDPELMIIDFEYCAYNYRGFDIANHFLEWTYDYTNEKFPFFFYRPENY
PNEKQIDNFIDSYLKNINMDAFDNKMTFVEEKKQLLEEINLFTIASHLFWTIWAIVNSSQ
EIEFGYWEYADIRLKEYFNAKEKYLQLKPMAKEIYDMQIRRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10409.t2 | CDD | cd05156 | ChoK_euk | 25 | 442 | 0 |
| 5 | g10409.t2 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 1 | 86 | 0 |
| 2 | g10409.t2 | PANTHER | PTHR22603 | CHOLINE/ETHANOALAMINE KINASE | 1 | 446 | 0 |
| 3 | g10409.t2 | PANTHER | PTHR22603:SF84 | RE24176P | 1 | 446 | 0 |
| 1 | g10409.t2 | Pfam | PF01633 | Choline/ethanolamine kinase | 70 | 365 | 0 |
| 4 | g10409.t2 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 6 | 443 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K14156 (choline/ethanolamine kinase)
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.
