General information for g10409.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Choline/ethanolamine kinase.
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.t3 | isoform | g10409.t3 | 9594860 | 9597069 |
| chr_1 | g10409 | g10409.t3 | exon | g10409.t3.exon1 | 9594860 | 9594878 |
| chr_1 | g10409 | g10409.t3 | exon | g10409.t3.exon2 | 9596116 | 9596232 |
| chr_1 | g10409 | g10409.t3 | exon | g10409.t3.exon3 | 9596291 | 9596567 |
| chr_1 | g10409 | g10409.t3 | cds | g10409.t3.CDS1 | 9596400 | 9596567 |
| chr_1 | g10409 | g10409.t3 | exon | g10409.t3.exon4 | 9596635 | 9597069 |
| chr_1 | g10409 | g10409.t3 | cds | g10409.t3.CDS2 | 9596635 | 9597069 |
| chr_1 | g10409 | g10409.t3 | TSS | g10409.t3 | NA | NA |
| chr_1 | g10409 | g10409.t3 | TTS | g10409.t3 | NA | NA |
Sequences
>g10409.t3 Gene=g10409 Length=848
TCTATATGAAATAGTCAAAGCTACCAGGTCTAATAGTGACATGAGAGACGTTGCAACAAG
AATTTGTCGCGAATACTTATCAGGAGCATGGAAGACAATATCACAAGATGAAATTCAAGT
CAAGCGAATGAGGTATTGGCGGTCTCTCAAATTTTTTATACTATGTAAGTTTGCCAAATC
GAAATGATTTTGGTGAAAATACAAATTTATCTAAACGGACACGTAAAGATAGTTATCATA
GCTCTATGGAACCTACTAAAGTATTGTTAAGGATTTATGGTCAGAGTCACGGTGAGCATG
CTCTTGAGACAATGCTTACAGAATCTGTTGTGTTCGCATTATTGAGTGAAAGACAATTAG
GACCAAAATTACATGGAATTTTTCCCGGAGGAAGAATTGAACAATACATTCCAGCTCGTT
CTTTGACAACTGCCGAATTATCCGATAGCAAAATTTCTGCAAAAATTGCTGAAAAAATGG
GACAAATACATAGCTTACACATTCCTGTTAGCAAAGAGGCTGATTGGATTTTCAATACGA
TTAATAGATGGTTAAACAATGTTGATGCAATTATGAATGATATCAAAAACAATAACAATG
ATGATGACCAAGTTCCGGAAATTCAGAAACGATTAAGCAAAATTGATTTAAGGCATGAAG
CGAATTGGTTAAAAAAAATTGCAGAGACCGAGTCGTATCCAGTTGTCTTTTGTCATAATG
ATCTTCAAGAAGGTAACATACTGTTTCGTCAAAATAACTTTGTTCCACCTGATGATTTAG
TAGAAACACTTGATGAAGAACTTCACAAAATTGATGACCTCTCACCAATGCTTATCTCAT
GTCCAAAA
>g10409.t3 Gene=g10409 Length=201
MEPTKVLLRIYGQSHGEHALETMLTESVVFALLSERQLGPKLHGIFPGGRIEQYIPARSL
TTAELSDSKISAKIAEKMGQIHSLHIPVSKEADWIFNTINRWLNNVDAIMNDIKNNNNDD
DQVPEIQKRLSKIDLRHEANWLKKIAETESYPVVFCHNDLQEGNILFRQNNFVPPDDLVE
TLDEELHKIDDLSPMLISCPK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10409.t3 | Gene3D | G3DSA:3.90.1200.10 | - | 18 | 190 | 0 |
| 2 | g10409.t3 | PANTHER | PTHR22603 | CHOLINE/ETHANOALAMINE KINASE | 2 | 190 | 0 |
| 3 | g10409.t3 | PANTHER | PTHR22603:SF84 | RE24176P | 2 | 190 | 0 |
| 1 | g10409.t3 | Pfam | PF01633 | Choline/ethanolamine kinase | 3 | 170 | 0 |
| 4 | g10409.t3 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 2 | 171 | 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.
