Gene loci information

Transcript annotation

  • This transcript has been annotated as V-type proton ATPase catalytic subunit A.

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 g8216 g8216.t7 TSS g8216.t7 29093634 29093634
chr_2 g8216 g8216.t7 isoform g8216.t7 29094059 29094939
chr_2 g8216 g8216.t7 exon g8216.t7.exon1 29094059 29094134
chr_2 g8216 g8216.t7 cds g8216.t7.CDS1 29094059 29094134
chr_2 g8216 g8216.t7 exon g8216.t7.exon2 29094215 29094409
chr_2 g8216 g8216.t7 cds g8216.t7.CDS2 29094215 29094409
chr_2 g8216 g8216.t7 exon g8216.t7.exon3 29094472 29094939
chr_2 g8216 g8216.t7 cds g8216.t7.CDS3 29094472 29094938
chr_2 g8216 g8216.t7 TTS g8216.t7 NA NA

Sequences

>g8216.t7 Gene=g8216 Length=739
ATGTCTAATTTAAAGAAGATAGCAAATGAGGACCGTGAGTCAAAATTCGGCTATGTATTT
GCCGTTTCAGGACCTGTCGTCACTGCTGAACGAATGGCTGGATCAGCTATGTACGAGTTG
GTGCGTGTAGGCTATTATGAATTGGTTGGTGAAATTATTCGTTTAGAAGGTGATATGGCA
ACAATTCAAGTCTATGAAGAAACATCAGGTGTAACTGTTGGTGATCCTGTCTTGAGAACT
GGCAAACCTTTATCAGTCGAATTGGGTCCAGGTATTATGGGTAGTATTTTTGACGGTATT
CAACGTCCATTAAAAGACATTAATGAATTGACACAATCAATTTATATCCCAAAGGGAATT
AATATTCCTTCACTTTCTCGTACTCAATCATGGGATTTTAATCCATTAAATGTAAAAGTC
GGATCGCACATAACTGGAGGTGATTTGTATGGTGTAGTTCATGAAAATACTTTAGTCAAA
CATAAATTGATTGTACCACCGAGAGCGAAAGGAACAGTTCGTTATATTGCACCACCAGGC
AATTATACAGTGGATGATATCATTCTTGAGACAGAATTTGATGGTGAAATCAATAAATAT
TCCATGTTGCAAGTGTGGCCTGTTCGTCAGCCACGTCCAGTCACTGAAAAATTGCCAGCA
AATCATCCCTTGCTGACTGGTCAGCGTGTCTTGGATTCATTGTTTCCATGTGTTCAAGGA
GGAACAACTGCTATACCTG

>g8216.t7 Gene=g8216 Length=246
MSNLKKIANEDRESKFGYVFAVSGPVVTAERMAGSAMYELVRVGYYELVGEIIRLEGDMA
TIQVYEETSGVTVGDPVLRTGKPLSVELGPGIMGSIFDGIQRPLKDINELTQSIYIPKGI
NIPSLSRTQSWDFNPLNVKVGSHITGGDLYGVVHENTLVKHKLIVPPRAKGTVRYIAPPG
NYTVDDIILETEFDGEINKYSMLQVWPVRQPRPVTEKLPANHPLLTGQRVLDSLFPCVQG
GTTAIP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g8216.t7 CDD cd18119 ATP-synt_V_A-type_alpha_N 16 82 0e+00
9 g8216.t7 Gene3D G3DSA:2.40.30.20 - 15 84 0e+00
8 g8216.t7 Gene3D G3DSA:2.40.50.100 - 129 188 0e+00
7 g8216.t7 Gene3D G3DSA:3.40.50.300 - 189 246 0e+00
3 g8216.t7 PANTHER PTHR43607:SF1 V-TYPE PROTON ATPASE CATALYTIC SUBUNIT A 9 246 0e+00
4 g8216.t7 PANTHER PTHR43607 V-TYPE PROTON ATPASE CATALYTIC SUBUNIT A 9 246 0e+00
2 g8216.t7 Pfam PF02874 ATP synthase alpha/beta family, beta-barrel domain 19 81 0e+00
1 g8216.t7 Pfam PF16886 ATPsynthase alpha/beta subunit N-term extension 97 218 0e+00
5 g8216.t7 SUPERFAMILY SSF50615 N-terminal domain of alpha and beta subunits of F1 ATP synthase 13 84 0e+00
6 g8216.t7 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 195 246 4e-07

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0046034 ATP metabolic process BP
GO:1902600 proton transmembrane transport BP

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