Gene loci information

Transcript annotation

  • This transcript has been annotated as Choline kinase A2.

Parent gene

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.t5 isoform g10409.t5 9595004 9597654
chr_1 g10409 g10409.t5 exon g10409.t5.exon1 9595004 9595021
chr_1 g10409 g10409.t5 exon g10409.t5.exon2 9596116 9596232
chr_1 g10409 g10409.t5 exon g10409.t5.exon3 9596291 9596567
chr_1 g10409 g10409.t5 cds g10409.t5.CDS1 9596400 9596567
chr_1 g10409 g10409.t5 exon g10409.t5.exon4 9596635 9597654
chr_1 g10409 g10409.t5 cds g10409.t5.CDS2 9596635 9597654
chr_1 g10409 g10409.t5 TSS g10409.t5 NA NA
chr_1 g10409 g10409.t5 TTS g10409.t5 NA NA

Sequences

>g10409.t5 Gene=g10409 Length=1432
ATGCAAAGTTTAATTAAGGCTACCAGGTCTAATAGTGACATGAGAGACGTTGCAACAAGA
ATTTGTCGCGAATACTTATCAGGAGCATGGAAGACAATATCACAAGATGAAATTCAAGTC
AAGCGAATGAGGTATTGGCGGTCTCTCAAATTTTTTATACTATGTAAGTTTGCCAAATCG
AAATGATTTTGGTGAAAATACAAATTTATCTAAACGGACACGTAAAGATAGTTATCATAG
CTCTATGGAACCTACTAAAGTATTGTTAAGGATTTATGGTCAGAGTCACGGTGAGCATGC
TCTTGAGACAATGCTTACAGAATCTGTTGTGTTCGCATTATTGAGTGAAAGACAATTAGG
ACCAAAATTACATGGAATTTTTCCCGGAGGAAGAATTGAACAATACATTCCAGCTCGTTC
TTTGACAACTGCCGAATTATCCGATAGCAAAATTTCTGCAAAAATTGCTGAAAAAATGGG
ACAAATACATAGCTTACACATTCCTGTTAGCAAAGAGGCTGATTGGATTTTCAATACGAT
TAATAGATGGTTAAACAATGTTGATGCAATTATGAATGATATCAAAAACAATAACAATGA
TGATGACCAAGTTCCGGAAATTCAGAAACGATTAAGCAAAATTGATTTAAGGCATGAAGC
GAATTGGTTAAAAAAAATTGCAGAGACCGAGTCGTATCCAGTTGTCTTTTGTCATAATGA
TCTTCAAGAAGGTAACATACTGTTTCGTCAAAATAACTTTGTTCCACCTGATGATTTAGT
AGAAACACTTGATGAAGAACTTCACAAAATTGATGACCTCTCACCAATGCTTATCTCATG
TCCAAAAACGAAAATAGAAAATGTTGAAAACACAAAAGTACAGGATACAATTAATGGAAA
TTCGCGTAAAAGATCGTTGGTCGATTCGAGTATTGACAACGAAGAAATTTCAAGTAACTT
TGATAACGATTGTAAGAAAGACGACCCAGAATTAATGATAATAGATTTTGAATATTGTGC
ATATAATTATAGAGGATTTGATATTGCAAATCACTTTTTAGAATGGACTTACGATTATAC
CAACGAAAAATTTCCATTCTTTTTCTATCGTCCCGAAAATTATCCGAACGAAAAGCAAAT
AGATAATTTTATTGATTCATATTTGAAAAATATCAATATGGATGCATTTGATAATAAAAT
GACATTTGTAGAGGAGAAGAAACAACTGCTTGAAGAAATTAACCTCTTCACAATCGCTTC
ACATCTATTTTGGACAATTTGGGCTATTGTAAATAGCAGTCAAGAAATAGAATTCGGTTA
CTGGGAATATGCGGATATCAGACTAAAAGAATATTTTAATGCAAAAGAAAAGTACTTACA
ATTGAAGCCTATGGCAAAAGAAATATATGATATGCAAATTAGACGAAAGTAA

>g10409.t5 Gene=g10409 Length=395
MEPTKVLLRIYGQSHGEHALETMLTESVVFALLSERQLGPKLHGIFPGGRIEQYIPARSL
TTAELSDSKISAKIAEKMGQIHSLHIPVSKEADWIFNTINRWLNNVDAIMNDIKNNNNDD
DQVPEIQKRLSKIDLRHEANWLKKIAETESYPVVFCHNDLQEGNILFRQNNFVPPDDLVE
TLDEELHKIDDLSPMLISCPKTKIENVENTKVQDTINGNSRKRSLVDSSIDNEEISSNFD
NDCKKDDPELMIIDFEYCAYNYRGFDIANHFLEWTYDYTNEKFPFFFYRPENYPNEKQID
NFIDSYLKNINMDAFDNKMTFVEEKKQLLEEINLFTIASHLFWTIWAIVNSSQEIEFGYW
EYADIRLKEYFNAKEKYLQLKPMAKEIYDMQIRRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g10409.t5 PANTHER PTHR22603 CHOLINE/ETHANOALAMINE KINASE 2 379 0
3 g10409.t5 PANTHER PTHR22603:SF84 RE24176P 2 379 0
1 g10409.t5 Pfam PF01633 Choline/ethanolamine kinase 3 298 0
4 g10409.t5 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 2 376 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

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. There were no conditions that were differentially expressed