Gene loci information

Transcript annotation

  • This transcript has been annotated as V-type proton ATPase catalytic subunit A isoform 2.

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.t9 TSS g8216.t9 29093634 29093634
chr_2 g8216 g8216.t9 isoform g8216.t9 29094059 29096122
chr_2 g8216 g8216.t9 exon g8216.t9.exon1 29094059 29094409
chr_2 g8216 g8216.t9 exon g8216.t9.exon2 29094472 29095559
chr_2 g8216 g8216.t9 cds g8216.t9.CDS1 29095213 29095559
chr_2 g8216 g8216.t9 exon g8216.t9.exon3 29095633 29096122
chr_2 g8216 g8216.t9 cds g8216.t9.CDS2 29095633 29096122
chr_2 g8216 g8216.t9 TTS g8216.t9 29096588 29096588

Sequences

>g8216.t9 Gene=g8216 Length=1929
ATGTCTAATTTAAAGAAGATAGCAAATGAGGACCGTGAGTCAAAATTCGGCTATGTATTT
GCCGTTTCAGGACCTGGTAAGTCTCAGAACAAGAAATTGTTATAGAGAGAAGAAAATCAA
AATACTATATATATATATTATAATATACTCTTATAGTCGTCACTGCTGAACGAATGGCTG
GATCAGCTATGTACGAGTTGGTGCGTGTAGGCTATTATGAATTGGTTGGTGAAATTATTC
GTTTAGAAGGTGATATGGCAACAATTCAAGTCTATGAAGAAACATCAGGTGTAACTGTTG
GTGATCCTGTCTTGAGAACTGGCAAACCTTTATCAGTCGAATTGGGTCCAGGTATTATGG
GTAGTATTTTTGACGGTATTCAACGTCCATTAAAAGACATTAATGAATTGACACAATCAA
TTTATATCCCAAAGGGAATTAATATTCCTTCACTTTCTCGTACTCAATCATGGGATTTTA
ATCCATTAAATGTAAAAGTCGGATCGCACATAACTGGAGGTGATTTGTATGGTGTAGTTC
ATGAAAATACTTTAGTCAAACATAAATTGATTGTACCACCGAGAGCGAAAGGAACAGTTC
GTTATATTGCACCACCAGGCAATTATACAGTGGATGATATCATTCTTGAGACAGAATTTG
ATGGTGAAATCAATAAATATTCCATGTTGCAAGTGTGGCCTGTTCGTCAGCCACGTCCAG
TCACTGAAAAATTGCCAGCAAATCATCCCTTGCTGACTGGTCAGCGTGTCTTGGATTCAT
TGTTTCCATGTGTTCAAGGAGGAACAACTGCTATACCTGGTGCTTTCGGTTGTGAAAAAA
ACTGTTATTTTCGCAAGCCCTTTCAAAATATTCCAATTCAGATGTCATTATTTATGTCGG
TTGCGGAGAACGTGGAAATGAAATGTCTGAAGTACTTCGTGATTTCCCAAGATTGTCTGT
TGAAATTGATGGCGTAACTGAGTCTATCATGAAGCGTACAGCTCTTGTCGCTAACACATC
AAACATGCCTGTTGCTCTGCTCGTGAAGCTTCCATTTATACTGGTATTACACTTTCTGAA
TACTTCCGTGATATGGGTTATAATGTCTCTATGATGGCTGATTCGACTTCTCGTTGGGCT
GAGGCTCTTCGTGAAATTTCAGGTCGTCTCGCTGAAATGCCTGCTGATTCAGGTTATCCA
GCTTATTTGGGAGCTCGTCTTGCCTCATTTTACGAACGTGCTGGTCGTGTTAAATGTTTG
GGTAATCCAGAACGTGAAGGTTCAGTATCAATTGTCGGCGCTGTATCGCCACCTGGCGGT
GACTTCTCAGATCCTGTTACATCTGCTACTTTAGGTATTGTTCAAGTGTTTTGGGGTTTG
GATAAAAAATTGGCCCAACGTAAACATTTTCCATCTATCAATTGGCTCATTTCATACAGT
AAATATATGCGTGCACTTGATGATTTTTATGATAAAAACTTCCCCGAATTCGTTCCATTA
CGTACAAAAGTGAAGGAAATTCTTCAAGAAGAAGAAGACTTGTCAGAAATTGTGCAACTC
GTTGGTAAAGCATCATTGGCTGAAACTGATAAGATCACATTAGAAGTTGCTAAGCTTCTT
AAGGATGACTTTTTACAACAAAATTCTTATTCATCATATGATCGTTTCTGTCCATTCTAT
AAAACTGTCGGCATGTTAAGAAATTTTATTGCATTCTACGATATGGCTCGTCACGCTGTT
GAATCAACAGCACAATCAGAAAATAAAATTACATGGAACATCATTCGTGATTCAATGGGC
AACATGCTTTATCAATTATCATCTATGAAATTTAAAGATCCAGTCAAAGACGGTGAAGCA
AAAATCAAAGCTGATTTCGATCAATTGCATGAAGAATTACAACAAGCTTTCCGCAATCTA
GAGGATTAA

>g8216.t9 Gene=g8216 Length=278
MGYNVSMMADSTSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGNPE
REGSVSIVGAVSPPGGDFSDPVTSATLGIVQVFWGLDKKLAQRKHFPSINWLISYSKYMR
ALDDFYDKNFPEFVPLRTKVKEILQEEEDLSEIVQLVGKASLAETDKITLEVAKLLKDDF
LQQNSYSSYDRFCPFYKTVGMLRNFIAFYDMARHAVESTAQSENKITWNIIRDSMGNMLY
QLSSMKFKDPVKDGEAKIKADFDQLHEELQQAFRNLED

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g8216.t9 CDD cd18111 ATP-synt_V_A-type_alpha_C 133 238 3.1999E-52
9 g8216.t9 Coils Coil Coil 259 278 -
7 g8216.t9 Gene3D G3DSA:3.40.50.300 - 1 116 4.1E-50
8 g8216.t9 Gene3D G3DSA:1.10.1140.10 - 117 276 2.8E-52
2 g8216.t9 PANTHER PTHR43607:SF1 V-TYPE PROTON ATPASE CATALYTIC SUBUNIT A 1 276 2.6E-145
3 g8216.t9 PANTHER PTHR43607 V-TYPE PROTON ATPASE CATALYTIC SUBUNIT A 1 276 2.6E-145
1 g8216.t9 Pfam PF00006 ATP synthase alpha/beta family, nucleotide-binding domain 1 116 7.1E-55
6 g8216.t9 ProSitePatterns PS00152 ATP synthase alpha and beta subunits signature. 107 116 -
4 g8216.t9 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 1 121 5.01E-37
5 g8216.t9 SUPERFAMILY SSF47917 C-terminal domain of alpha and beta subunits of F1 ATP synthase 131 233 8.89E-27

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:0005524 ATP binding 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