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.t6 isoform g5718.t6 11379184 11381659
chr_2 g5718 g5718.t6 exon g5718.t6.exon1 11379184 11379848
chr_2 g5718 g5718.t6 cds g5718.t6.CDS1 11379536 11379848
chr_2 g5718 g5718.t6 exon g5718.t6.exon2 11379911 11380130
chr_2 g5718 g5718.t6 cds g5718.t6.CDS2 11379911 11380130
chr_2 g5718 g5718.t6 exon g5718.t6.exon3 11380198 11380249
chr_2 g5718 g5718.t6 cds g5718.t6.CDS3 11380198 11380249
chr_2 g5718 g5718.t6 exon g5718.t6.exon4 11380756 11380830
chr_2 g5718 g5718.t6 cds g5718.t6.CDS4 11380756 11380830
chr_2 g5718 g5718.t6 exon g5718.t6.exon5 11381657 11381659
chr_2 g5718 g5718.t6 cds g5718.t6.CDS5 11381657 11381659
chr_2 g5718 g5718.t6 TSS g5718.t6 11381744 11381744
chr_2 g5718 g5718.t6 TTS g5718.t6 NA NA

Sequences

>g5718.t6 Gene=g5718 Length=1015
ATGTTATTCATGTGTCATCAGATGGCAAATGAACATGAGAAAAAACAAAAGGAAAAATCA
TCATCACGACAAACGTCTGTTGTTGATTCAAAGACTCCAATTATTTGGGTTTTAGGCGGA
CCAGGATGCGGCAAGGGAACACAGTGTGATAAGATTGTTGCCAAGTATGGCTTTAACCAC
CTTTCAACTGGCGACTTACTACGTGCTGAAGTAGCTTCAGGTTCAGTAAAGGGTCAAGAG
TTGTTGAGTATCATGAAAACAGGTGGATTAGTTAGCAATGAAGCAGTTCTTGAACTTCTT
GCTGCTGCTATGTCAAAAATTGAAAATGCCAAAGGATTTCTTATTGATGGATACCCAAGA
GAGGAAGCACAAGGACGAGAATTTGAAAAGCTTATTCGTCCAGTTGATCTCGTTCTTTAC
TTTGAATGCTCCAATGAAACACTTGTGAATCGTATTCTTGTTCGTGCTGCTGCCTCTGTT
GAAAAGCGTGCTGATGATAATGAAGAAACTTTAAAGACAAGAATCGCAACATTCAGAGCC
AATACTGAGAAAATTCTAATTCAATATCCTGATAAACTTAGACGCATTAATGCCGAACGT
GGAGTTGATGAAATTTTTGCAGAAGTATCTGATGCCATTGATGCTACATTAGCTAAAAAA
TAAATTTAAATTTTCTTAAAGCACTTTCTCTCTTTTTATAACTTTTAAATGTATAACAAT
AAAAAACCATTTAATGGAGCAATTTTCAGATGTAAGAAACAATAATTATTAATAATTACG
CTTACAAAATTATAAATGGGAGGAAGAATAAATTCAATTAAAAATTTTCAATATCATTTA
CATGATGAATTGGATGAATAATAAGCTATTAATGTTATATACAGAAGAAAAGATGAAACA
AAAATATTTATTTTCAATGTGAAATTTCGTGCAAATAAAATTAATTGAATTCATTTTAAT
GTTCAATTTTTCAACTTGTTGATTTCTTTGGTGAAAAACGATTGTTGGGGCGTTT

>g5718.t6 Gene=g5718 Length=220
MLFMCHQMANEHEKKQKEKSSSRQTSVVDSKTPIIWVLGGPGCGKGTQCDKIVAKYGFNH
LSTGDLLRAEVASGSVKGQELLSIMKTGGLVSNEAVLELLAAAMSKIENAKGFLIDGYPR
EEAQGREFEKLIRPVDLVLYFECSNETLVNRILVRAAASVEKRADDNEETLKTRIATFRA
NTEKILIQYPDKLRRINAERGVDEIFAEVSDAIDATLAKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g5718.t6 CDD cd01428 ADK 34 205 1.41099E-64
11 g5718.t6 Coils Coil Coil 220 220 -
10 g5718.t6 Gene3D G3DSA:3.40.50.300 - 19 216 3.5E-58
4 g5718.t6 Hamap MF_00235 Adenylate kinase [adk]. 33 214 34.717617
2 g5718.t6 PANTHER PTHR23359 NUCLEOTIDE KINASE 6 214 9.9E-68
3 g5718.t6 PANTHER PTHR23359:SF70 ADENYLATE KINASE 1, ISOFORM B 6 214 9.9E-68
5 g5718.t6 PRINTS PR00094 Adenylate kinase signature 36 49 1.1E-24
8 g5718.t6 PRINTS PR00094 Adenylate kinase signature 64 78 1.1E-24
7 g5718.t6 PRINTS PR00094 Adenylate kinase signature 113 129 1.1E-24
6 g5718.t6 PRINTS PR00094 Adenylate kinase signature 163 178 1.1E-24
1 g5718.t6 Pfam PF00406 Adenylate kinase 37 190 8.8E-45
13 g5718.t6 ProSitePatterns PS00113 Adenylate kinase signature. 113 124 -
9 g5718.t6 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 33 213 1.07E-33

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5718/g5718.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5718.t6.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. There were no conditions that were differentially expressed