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.t2 TTS g5718.t2 11379234 11379234
chr_2 g5718 g5718.t2 isoform g5718.t2 11379536 11381659
chr_2 g5718 g5718.t2 exon g5718.t2.exon1 11379536 11379848
chr_2 g5718 g5718.t2 cds g5718.t2.CDS1 11379536 11379848
chr_2 g5718 g5718.t2 exon g5718.t2.exon2 11379911 11380130
chr_2 g5718 g5718.t2 cds g5718.t2.CDS2 11379911 11380130
chr_2 g5718 g5718.t2 exon g5718.t2.exon3 11380198 11380249
chr_2 g5718 g5718.t2 cds g5718.t2.CDS3 11380198 11380249
chr_2 g5718 g5718.t2 exon g5718.t2.exon4 11381657 11381659
chr_2 g5718 g5718.t2 cds g5718.t2.CDS4 11381657 11381659
chr_2 g5718 g5718.t2 TSS g5718.t2 11381744 11381744

Sequences

>g5718.t2 Gene=g5718 Length=588
ATGGTTGTTGATTCAAAGACTCCAATTATTTGGGTTTTAGGCGGACCAGGATGCGGCAAG
GGAACACAGTGTGATAAGATTGTTGCCAAGTATGGCTTTAACCACCTTTCAACTGGCGAC
TTACTACGTGCTGAAGTAGCTTCAGGTTCAGTAAAGGGTCAAGAGTTGTTGAGTATCATG
AAAACAGGTGGATTAGTTAGCAATGAAGCAGTTCTTGAACTTCTTGCTGCTGCTATGTCA
AAAATTGAAAATGCCAAAGGATTTCTTATTGATGGATACCCAAGAGAGGAAGCACAAGGA
CGAGAATTTGAAAAGCTTATTCGTCCAGTTGATCTCGTTCTTTACTTTGAATGCTCCAAT
GAAACACTTGTGAATCGTATTCTTGTTCGTGCTGCTGCCTCTGTTGAAAAGCGTGCTGAT
GATAATGAAGAAACTTTAAAGACAAGAATCGCAACATTCAGAGCCAATACTGAGAAAATT
CTAATTCAATATCCTGATAAACTTAGACGCATTAATGCCGAACGTGGAGTTGATGAAATT
TTTGCAGAAGTATCTGATGCCATTGATGCTACATTAGCTAAAAAATAA

>g5718.t2 Gene=g5718 Length=195
MVVDSKTPIIWVLGGPGCGKGTQCDKIVAKYGFNHLSTGDLLRAEVASGSVKGQELLSIM
KTGGLVSNEAVLELLAAAMSKIENAKGFLIDGYPREEAQGREFEKLIRPVDLVLYFECSN
ETLVNRILVRAAASVEKRADDNEETLKTRIATFRANTEKILIQYPDKLRRINAERGVDEI
FAEVSDAIDATLAKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g5718.t2 CDD cd01428 ADK 9 180 3.21723E-64
10 g5718.t2 Gene3D G3DSA:3.40.50.300 - 2 192 6.1E-58
4 g5718.t2 Hamap MF_00235 Adenylate kinase [adk]. 8 189 34.717617
2 g5718.t2 PANTHER PTHR23359 NUCLEOTIDE KINASE 8 189 6.0E-66
3 g5718.t2 PANTHER PTHR23359:SF70 ADENYLATE KINASE 1, ISOFORM B 8 189 6.0E-66
8 g5718.t2 PRINTS PR00094 Adenylate kinase signature 11 24 8.0E-25
5 g5718.t2 PRINTS PR00094 Adenylate kinase signature 39 53 8.0E-25
7 g5718.t2 PRINTS PR00094 Adenylate kinase signature 88 104 8.0E-25
6 g5718.t2 PRINTS PR00094 Adenylate kinase signature 138 153 8.0E-25
1 g5718.t2 Pfam PF00406 Adenylate kinase 12 165 5.9E-45
12 g5718.t2 ProSitePatterns PS00113 Adenylate kinase signature. 88 99 -
9 g5718.t2 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 8 188 7.19E-34

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5718/g5718.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5718.t2.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

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.

Raw TPM values