Gene loci information

Transcript annotation

  • This transcript has been annotated as ATPase family protein 2-like protein.

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 g5687 g5687.t4 isoform g5687.t4 11256073 11257043
chr_2 g5687 g5687.t4 exon g5687.t4.exon1 11256073 11257043
chr_2 g5687 g5687.t4 cds g5687.t4.CDS1 11256225 11257043
chr_2 g5687 g5687.t4 TSS g5687.t4 NA NA
chr_2 g5687 g5687.t4 TTS g5687.t4 NA NA

Sequences

>g5687.t4 Gene=g5687 Length=971
TTGATATTCAAGCGATTGCAAAATTCACTCATGGATTTGTTGGCGCTGATCTTGAAAACT
TAATATCAAAATCAAAGAAAATTACGAATGGTTACGTTCATTTAACACAACAAGATATCC
TTTCTAATTTATCATCAGTTAAACCAAGCGCAATGCGAGAATTACTCGTTGAGAAACCAA
ATGTAAAATGGTCAGATATTGGTGGAATGAAAGATTTAAAATTAAAATTGAAGCAAATTG
TTGAATGGCCATTGCAACATCCAGAAACATTTTCACGATTAGGAATTAAAGCGCCACGTG
GACTTTTGATGTTTGGTCCTCCTGGTTGCTCTAAAACAATGATTGCAAAAGCTTTAGCTA
GTGAGAGCAATTTAAATTTTATTTCAATCAAAGGTTCAGATCTTTTTTCTATGTGGGTTG
GTGAATCCGAGAAAGCTGTAAGAGATCTCTTTATTAAAGCGCGTCAATTAGCTCCATGCA
TAATATTTTTTGATGAAATTGATGCAATCGGTGGCGAAAGAGAAAGTGGAAGTTCTGTCA
AGGAACGAGTGCTGGCACAAATATTGACTGAGCTTGATGGAATTAATGTGCTTAAAGATG
TAATTATTATTGCAGCAACAAATCGTCCTGATTTAATTGATTCGGCACTTATGCGGCCGG
GTCGTCTTGATAGAATTGTTTATGTTCAATTACCAGATGCTGACACAAGAGAAGAGATTT
TTAACATAAAACTCAAAAATATACCTATAGCAAAAGATGTTGATATAAAAAAACTTGTGG
AAAAAACAAAAGGTTATTCCGGTGCTGAAATCGAAGCTGTTTGTAAAGAAGCTGCACTTA
AGGCTCTAGAAGATTCATTTGATATAGATGAAATTACAATGAATTATTTTGATAAAGCAT
TAACAATAGTGACACCTCGCACTAGTTCTGAACTTCTTGAACTTTATCGTGATTATGAAA
GAAAAAAATAA

>g5687.t4 Gene=g5687 Length=272
MRELLVEKPNVKWSDIGGMKDLKLKLKQIVEWPLQHPETFSRLGIKAPRGLLMFGPPGCS
KTMIAKALASESNLNFISIKGSDLFSMWVGESEKAVRDLFIKARQLAPCIIFFDEIDAIG
GERESGSSVKERVLAQILTELDGINVLKDVIIIAATNRPDLIDSALMRPGRLDRIVYVQL
PDADTREEIFNIKLKNIPIAKDVDIKKLVEKTKGYSGAEIEAVCKEAALKALEDSFDIDE
ITMNYFDKALTIVTPRTSSELLELYRDYERKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g5687.t4 CDD cd00009 AAA 17 180 5.14425E-26
8 g5687.t4 Gene3D G3DSA:3.40.50.300 - 9 267 8.3E-102
9 g5687.t4 Gene3D G3DSA:1.10.8.60 - 181 253 8.3E-102
3 g5687.t4 PANTHER PTHR23077:SF27 ATPASE FAMILY PROTEIN 2 HOMOLOG 1 269 2.5E-118
4 g5687.t4 PANTHER PTHR23077 AAA-FAMILY ATPASE 1 269 2.5E-118
1 g5687.t4 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 51 179 1.5E-43
2 g5687.t4 Pfam PF17862 AAA+ lid domain 202 247 2.2E-16
7 g5687.t4 ProSitePatterns PS00674 AAA-protein family signature. 150 168 -
6 g5687.t4 SMART SM00382 AAA_5 47 182 2.3E-19
5 g5687.t4 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 9 267 2.56E-68

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5687/g5687.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5687.t4.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005524 ATP binding MF
GO:0016887 ATP hydrolysis 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