Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Adenylate kinase isoenzyme 1.

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_2 g5718 g5718.t9 TTS g5718.t9 11379234 11379234
chr_2 g5718 g5718.t9 isoform g5718.t9 11379536 11380249
chr_2 g5718 g5718.t9 exon g5718.t9.exon1 11379536 11379848
chr_2 g5718 g5718.t9 cds g5718.t9.CDS1 11379536 11379848
chr_2 g5718 g5718.t9 exon g5718.t9.exon2 11379911 11380130
chr_2 g5718 g5718.t9 cds g5718.t9.CDS2 11379911 11380008
chr_2 g5718 g5718.t9 exon g5718.t9.exon3 11380198 11380249
chr_2 g5718 g5718.t9 TSS g5718.t9 NA NA

Sequences

>g5718.t9 Gene=g5718 Length=585
GTTGTTGATTCAAAGACTCCAATTATTTGGGTTTTAGGCGGACCAGGATGCGGCAAGGGA
ACACAGTGTGATAAGATTGTTGCCAAGTATGGCTTTAACCACCTTTCAACTGGCGACTTA
CTACGTGCTGAAGTAGCTTCAGGTTCAGTAAAGGGTCAAGAGTTGTTGAGTATCATGAAA
ACAGGTGGATTAGTTAGCAATGAAGCAGTTCTTGAACTTCTTGCTGCTGCTATGTCAAAA
ATTGAAAATGCCAAAGGATTTCTTATTGATGGATACCCAAGAGAGGAAGCACAAGGACGA
GAATTTGAAAAGCTTATTCGTCCAGTTGATCTCGTTCTTTACTTTGAATGCTCCAATGAA
ACACTTGTGAATCGTATTCTTGTTCGTGCTGCTGCCTCTGTTGAAAAGCGTGCTGATGAT
AATGAAGAAACTTTAAAGACAAGAATCGCAACATTCAGAGCCAATACTGAGAAAATTCTA
ATTCAATATCCTGATAAACTTAGACGCATTAATGCCGAACGTGGAGTTGATGAAATTTTT
GCAGAAGTATCTGATGCCATTGATGCTACATTAGCTAAAAAATAA

>g5718.t9 Gene=g5718 Length=136
MKTGGLVSNEAVLELLAAAMSKIENAKGFLIDGYPREEAQGREFEKLIRPVDLVLYFECS
NETLVNRILVRAAASVEKRADDNEETLKTRIATFRANTEKILIQYPDKLRRINAERGVDE
IFAEVSDAIDATLAKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g5718.t9 CDD cd01428 ADK 1 121 2.15657E-33
8 g5718.t9 Gene3D G3DSA:3.40.50.300 - 1 132 4.0E-33
4 g5718.t9 Hamap MF_00235 Adenylate kinase [adk]. 1 130 20.965721
2 g5718.t9 PANTHER PTHR23359 NUCLEOTIDE KINASE 1 130 1.6E-36
3 g5718.t9 PANTHER PTHR23359:SF70 ADENYLATE KINASE 1, ISOFORM B 1 130 1.6E-36
5 g5718.t9 PRINTS PR00094 Adenylate kinase signature 29 45 8.2E-9
6 g5718.t9 PRINTS PR00094 Adenylate kinase signature 79 94 8.2E-9
1 g5718.t9 Pfam PF00406 Adenylate kinase 1 106 4.2E-21
10 g5718.t9 ProSitePatterns PS00113 Adenylate kinase signature. 29 40 -
7 g5718.t9 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 3 129 3.39E-17

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5718/g5718.t9; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5718.t9.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005524 ATP binding MF
GO:0006139 nucleobase-containing compound metabolic process BP
GO:0019205 nucleobase-containing compound kinase activity MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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.

Raw TPM values