General information for g10409.t1
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.t1 | isoform | g10409.t1 | 9595004 | 9597654 |
| chr_1 | g10409 | g10409.t1 | exon | g10409.t1.exon1 | 9595004 | 9595021 |
| chr_1 | g10409 | g10409.t1 | cds | g10409.t1.CDS1 | 9595004 | 9595021 |
| chr_1 | g10409 | g10409.t1 | exon | g10409.t1.exon2 | 9596116 | 9596228 |
| chr_1 | g10409 | g10409.t1 | cds | g10409.t1.CDS2 | 9596116 | 9596228 |
| chr_1 | g10409 | g10409.t1 | exon | g10409.t1.exon3 | 9596291 | 9596567 |
| chr_1 | g10409 | g10409.t1 | cds | g10409.t1.CDS3 | 9596291 | 9596567 |
| chr_1 | g10409 | g10409.t1 | exon | g10409.t1.exon4 | 9596635 | 9597654 |
| chr_1 | g10409 | g10409.t1 | cds | g10409.t1.CDS4 | 9596635 | 9597654 |
| chr_1 | g10409 | g10409.t1 | TSS | g10409.t1 | NA | NA |
| chr_1 | g10409 | g10409.t1 | TTS | g10409.t1 | NA | NA |
Sequences
>g10409.t1 Gene=g10409 Length=1428
ATGCAAAGTTTAATTAAGGCTACCAGGTCTAATAGTGACATGAGAGACGTTGCAACAAGA
ATTTGTCGCGAATACTTATCAGGAGCATGGAAGACAATATCACAAGATGAAATTCAAGTC
AAGCGAATGAGTGGCGGTCTCTCAAATTTTTTATACTATGTAAGTTTGCCAAATCGAAAT
GATTTTGGTGAAAATACAAATTTATCTAAACGGACACGTAAAGATAGTTATCATAGCTCT
ATGGAACCTACTAAAGTATTGTTAAGGATTTATGGTCAGAGTCACGGTGAGCATGCTCTT
GAGACAATGCTTACAGAATCTGTTGTGTTCGCATTATTGAGTGAAAGACAATTAGGACCA
AAATTACATGGAATTTTTCCCGGAGGAAGAATTGAACAATACATTCCAGCTCGTTCTTTG
ACAACTGCCGAATTATCCGATAGCAAAATTTCTGCAAAAATTGCTGAAAAAATGGGACAA
ATACATAGCTTACACATTCCTGTTAGCAAAGAGGCTGATTGGATTTTCAATACGATTAAT
AGATGGTTAAACAATGTTGATGCAATTATGAATGATATCAAAAACAATAACAATGATGAT
GACCAAGTTCCGGAAATTCAGAAACGATTAAGCAAAATTGATTTAAGGCATGAAGCGAAT
TGGTTAAAAAAAATTGCAGAGACCGAGTCGTATCCAGTTGTCTTTTGTCATAATGATCTT
CAAGAAGGTAACATACTGTTTCGTCAAAATAACTTTGTTCCACCTGATGATTTAGTAGAA
ACACTTGATGAAGAACTTCACAAAATTGATGACCTCTCACCAATGCTTATCTCATGTCCA
AAAACGAAAATAGAAAATGTTGAAAACACAAAAGTACAGGATACAATTAATGGAAATTCG
CGTAAAAGATCGTTGGTCGATTCGAGTATTGACAACGAAGAAATTTCAAGTAACTTTGAT
AACGATTGTAAGAAAGACGACCCAGAATTAATGATAATAGATTTTGAATATTGTGCATAT
AATTATAGAGGATTTGATATTGCAAATCACTTTTTAGAATGGACTTACGATTATACCAAC
GAAAAATTTCCATTCTTTTTCTATCGTCCCGAAAATTATCCGAACGAAAAGCAAATAGAT
AATTTTATTGATTCATATTTGAAAAATATCAATATGGATGCATTTGATAATAAAATGACA
TTTGTAGAGGAGAAGAAACAACTGCTTGAAGAAATTAACCTCTTCACAATCGCTTCACAT
CTATTTTGGACAATTTGGGCTATTGTAAATAGCAGTCAAGAAATAGAATTCGGTTACTGG
GAATATGCGGATATCAGACTAAAAGAATATTTTAATGCAAAAGAAAAGTACTTACAATTG
AAGCCTATGGCAAAAGAAATATATGATATGCAAATTAGACGAAAGTAA
>g10409.t1 Gene=g10409 Length=475
MQSLIKATRSNSDMRDVATRICREYLSGAWKTISQDEIQVKRMSGGLSNFLYYVSLPNRN
DFGENTNLSKRTRKDSYHSSMEPTKVLLRIYGQSHGEHALETMLTESVVFALLSERQLGP
KLHGIFPGGRIEQYIPARSLTTAELSDSKISAKIAEKMGQIHSLHIPVSKEADWIFNTIN
RWLNNVDAIMNDIKNNNNDDDQVPEIQKRLSKIDLRHEANWLKKIAETESYPVVFCHNDL
QEGNILFRQNNFVPPDDLVETLDEELHKIDDLSPMLISCPKTKIENVENTKVQDTINGNS
RKRSLVDSSIDNEEISSNFDNDCKKDDPELMIIDFEYCAYNYRGFDIANHFLEWTYDYTN
EKFPFFFYRPENYPNEKQIDNFIDSYLKNINMDAFDNKMTFVEEKKQLLEEINLFTIASH
LFWTIWAIVNSSQEIEFGYWEYADIRLKEYFNAKEKYLQLKPMAKEIYDMQIRRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10409.t1 | CDD | cd05156 | ChoK_euk | 38 | 455 | 0 |
| 5 | g10409.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 8 | 99 | 0 |
| 2 | g10409.t1 | PANTHER | PTHR22603 | CHOLINE/ETHANOALAMINE KINASE | 13 | 459 | 0 |
| 3 | g10409.t1 | PANTHER | PTHR22603:SF84 | RE24176P | 13 | 459 | 0 |
| 1 | g10409.t1 | Pfam | PF01633 | Choline/ethanolamine kinase | 83 | 378 | 0 |
| 4 | g10409.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 18 | 456 | 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.
