Gene loci information

Transcript annotation

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

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 g5147 g5147.t15 TSS g5147.t15 7281189 7281189
chr_2 g5147 g5147.t15 isoform g5147.t15 7281746 7284485
chr_2 g5147 g5147.t15 exon g5147.t15.exon1 7281746 7281958
chr_2 g5147 g5147.t15 cds g5147.t15.CDS1 7281851 7281958
chr_2 g5147 g5147.t15 exon g5147.t15.exon2 7283058 7283192
chr_2 g5147 g5147.t15 cds g5147.t15.CDS2 7283058 7283192
chr_2 g5147 g5147.t15 exon g5147.t15.exon3 7283250 7283812
chr_2 g5147 g5147.t15 cds g5147.t15.CDS3 7283250 7283812
chr_2 g5147 g5147.t15 exon g5147.t15.exon4 7283873 7283997
chr_2 g5147 g5147.t15 cds g5147.t15.CDS4 7283873 7283997
chr_2 g5147 g5147.t15 exon g5147.t15.exon5 7284052 7284485
chr_2 g5147 g5147.t15 cds g5147.t15.CDS5 7284052 7284128
chr_2 g5147 g5147.t15 TTS g5147.t15 7284480 7284480

Sequences

>g5147.t15 Gene=g5147 Length=1470
CGAACTCGTGTCGATATATTTTTGGATTTTGCTTCTAAACGTAAAGAAACTGTTTGGGGA
CCTTTCCTTTCTTTATTGAATCGCTCTGATGGCTTCATCATTCATATGGCATCAAGAATT
ATCGCTAAATTGGCATGCTGGGGTCAAGATCAAATGCCCAAATCAGACTTAAACTTCTAC
TTGCAATGGCTTAAAGATCAACTTACAGTCAGCGATAATGAATACATTCAATCAGTTGGA
CGTTGTTTGCAAATGATGCTCAGAGTTGATGAATATCGTTTTGCCTTTGTTACAGTTGAT
GGCATCAGTACTTTGATTTCTATTCTTTCATCACGTGTTAATTTCCAAGTGCAATATCAA
CTTGTATTTTGCTTATGGGTTTTGACTTTCAATCCTCTTCTTGCTGAGAAGATGAATAAA
TTCAATGTTATTCCAATTCTTGCTGATATTCTTAGTGATTGTGCAAAGGAGAAAGTTACA
CGCATTATACTCGCCGTCTTTAGAAATTTGATCGAAAAGCCAGAGGATGCACAAGTGTCG
AAGGAACACTGCATTGCAATGGTTCAATGTAAAGTTCTCAAACAATTGTCCATTCTCGAG
CAACGTCGTTTTGACGATGAAGACATTACGTCTGATGTTGAATTTCTAACAGAAAGATTG
CAGACATCTGTTCAAGATTTGTCTTCATTTGATGAATATGCAACTGAAATCAAGAGCGGA
CGCTTAGAATGGTCACCTGTGCACAAATCAGCTAAATTCTGGCGTGAAAATGCACAACGT
TTGAATGAGAAGAATTATGAATTGCTTAGAATTTTAATTCATTTACTGGACACATCACGC
GATCCATTAGTTCTCTCAGTTGCCAGTTTTGACATTGGTGAATATGTTCGTCATTATCCA
AGAGGAAAGCATGTTATTGAACAATTGAATGGTAAACAATTGGTAATGCAACTTCTCGGA
CATGATGATCCCAATGTACGTTATGAGGCTCTTTTAGCTGTTCAAAAATTAATGGTTCAC
AATTGGGAATACTTAGGAAAACAATTGGAAAAAGATAGTGAAAAAGCACCTGGCGAGAAA
GAAGGAGGCAAGGTGATTTCAGGAAAAGCTTAAATATTTCTTATCACTTAAAACACTTGC
ATAAACAAGAAAAAATATACATCCATTAGTATTATTGAAAATAATCTATAATCAATGAAG
CAGAAGATATATCTTAATATGAATTATAAAATTATTATTGTTGATCAATTGTATGTACAT
AATGTTCCTCATTTCATAGTCAAAATTTTTGCTTGTTCTTTAACAATTTTACTTCTCTTA
AAATTTGGCTGAAAATTTAAGTCTTTATTTAGTCATTCCAAGACATTTCTTCATATATAA
TTTTGTGTTTAAAACTTATAAAAAGAAAAGTTTTGTTGTGCATCAATGAATAAATGAAAA
GAGAATAAAAATTTATGTGAATTGTAAAAA

>g5147.t15 Gene=g5147 Length=335
MASRIIAKLACWGQDQMPKSDLNFYLQWLKDQLTVSDNEYIQSVGRCLQMMLRVDEYRFA
FVTVDGISTLISILSSRVNFQVQYQLVFCLWVLTFNPLLAEKMNKFNVIPILADILSDCA
KEKVTRIILAVFRNLIEKPEDAQVSKEHCIAMVQCKVLKQLSILEQRRFDDEDITSDVEF
LTERLQTSVQDLSSFDEYATEIKSGRLEWSPVHKSAKFWRENAQRLNEKNYELLRILIHL
LDTSRDPLVLSVASFDIGEYVRHYPRGKHVIEQLNGKQLVMQLLGHDDPNVRYEALLAVQ
KLMVHNWEYLGKQLEKDSEKAPGEKEGGKVISGKA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g5147.t15 Gene3D G3DSA:1.25.10.10 - 14 193 8.0E-38
11 g5147.t15 Gene3D G3DSA:1.25.40.150 - 205 307 4.9E-38
9 g5147.t15 MobiDBLite mobidb-lite consensus disorder prediction 316 335 -
3 g5147.t15 PANTHER PTHR10698:SF0 V-TYPE PROTON ATPASE SUBUNIT H 1 311 2.8E-124
4 g5147.t15 PANTHER PTHR10698 V-TYPE PROTON ATPASE SUBUNIT H 1 311 2.8E-124
2 g5147.t15 Pfam PF03224 V-ATPase subunit H 1 185 9.6E-79
1 g5147.t15 Pfam PF11698 V-ATPase subunit H 192 307 6.7E-46
13 g5147.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 58 -
16 g5147.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 59 76 -
14 g5147.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 77 81 -
15 g5147.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 82 100 -
12 g5147.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 101 335 -
7 g5147.t15 SMART SM00185 arm_5 53 95 44.0
8 g5147.t15 SMART SM00185 arm_5 96 137 5.1
6 g5147.t15 SMART SM00185 arm_5 264 304 120.0
5 g5147.t15 SUPERFAMILY SSF48371 ARM repeat 4 308 4.48E-115

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5147/g5147.t15; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5147.t15.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:1902600 proton transmembrane transport BP
GO:0005515 protein binding MF
GO:0000221 vacuolar proton-transporting V-type ATPase, V1 domain CC
GO:0046961 proton-transporting ATPase activity, rotational mechanism 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