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.t8 TSS g5147.t8 7281189 7281189
chr_2 g5147 g5147.t8 isoform g5147.t8 7281299 7284128
chr_2 g5147 g5147.t8 exon g5147.t8.exon1 7281299 7281350
chr_2 g5147 g5147.t8 cds g5147.t8.CDS1 7281299 7281350
chr_2 g5147 g5147.t8 exon g5147.t8.exon2 7281419 7281681
chr_2 g5147 g5147.t8 cds g5147.t8.CDS2 7281419 7281681
chr_2 g5147 g5147.t8 exon g5147.t8.exon3 7281740 7281958
chr_2 g5147 g5147.t8 cds g5147.t8.CDS3 7281740 7281958
chr_2 g5147 g5147.t8 exon g5147.t8.exon4 7283058 7283192
chr_2 g5147 g5147.t8 cds g5147.t8.CDS4 7283058 7283192
chr_2 g5147 g5147.t8 exon g5147.t8.exon5 7283250 7283812
chr_2 g5147 g5147.t8 cds g5147.t8.CDS5 7283250 7283812
chr_2 g5147 g5147.t8 exon g5147.t8.exon6 7283873 7284128
chr_2 g5147 g5147.t8 cds g5147.t8.CDS6 7283873 7284005
chr_2 g5147 g5147.t8 TTS g5147.t8 7284480 7284480

Sequences

>g5147.t8 Gene=g5147 Length=1488
ATGGCCAGCAACGTCGATGACCTGATTTCATCTCATTTAGATGACAAAATTGATATGATT
GCTGCTACTAGTGTCTTACAGCAACAAGCTAGTGACATTCGAGCTCAGAAAATCAATTGG
CAATCATATCATCAATCTCAGATGATTTCGAATGAAGATTTTAATTGCATCACGGCTCTT
GATGGCGAGAAGAAAGCTCAATATTTGAAAGATAATCAGTATCAGAGCGCAAAAACCTTT
CTGAATCTTCTCAGTCATGTGTCGAAAGATACAACAATTCAATACTTGCTTGTCATGATT
GATGACTTACTTACTGAGGATCGAACTCGTGTCGATATATTTTTGGATTTTGCTTCTAAA
CGTAAAGAAACTGTTTGGGGACCTTTCCTTTCTTTATTGAATCGCTCTGATGGCTTCATC
ATTCATATGGCATCAAGAATTATCGCTAAATTGGCATGCTGGGGTCAAGATCAAATGCCC
AAATCAGACTTAAACTTCTACTTGCAATGGCTTAAAGATCAACTTACAGTCAGCGATAAT
GAATACATTCAATCAGTTGGACGTTGTTTGCAAATGATGCTCAGAGTTGATGAATATCGT
TTTGCCTTTGTTACAGTTGATGGCATCAGTACTTTGATTTCTATTCTTTCATCACGTGTT
AATTTCCAAGTGCAATATCAACTTGTATTTTGCTTATGGGTTTTGACTTTCAATCCTCTT
CTTGCTGAGAAGATGAATAAATTCAATGTTATTCCAATTCTTGCTGATATTCTTAGTGAT
TGTGCAAAGGAGAAAGTTACACGCATTATACTCGCCGTCTTTAGAAATTTGATCGAAAAG
CCAGAGGATGCACAAGTGTCGAAGGAACACTGCATTGCAATGGTTCAATGTAAAGTTCTC
AAACAATTGTCCATTCTCGAGCAACGTCGTTTTGACGATGAAGACATTACGTCTGATGTT
GAATTTCTAACAGAAAGATTGCAGACATCTGTTCAAGATTTGTCTTCATTTGATGAATAT
GCAACTGAAATCAAGAGCGGACGCTTAGAATGGTCACCTGTGCACAAATCAGCTAAATTC
TGGCGTGAAAATGCACAACGTTTGAATGAGAAGAATTATGAATTGCTTAGAATTTTAATT
CATTTACTGGACACATCACGCGATCCATTAGTTCTCTCAGTTGCCAGTTTTGACATTGGT
GAATATGTTCGTCATTATCCAAGAGGAAAGCATGTTATTGAACAATTGAATGGTAAACAA
TTGGTAATGCAACTTCTCGGACATGATGATCCCAATGTACGTTATGAGGCTCTTTTAGCT
GTTCAAAAATTAATGGTTCACAATTGGGAATACTTAGGTAAGTAATAAAACTATTCTTAA
GAATTTTGATTTAAAAATCTCTTATTTTTAGGAAAACAATTGGAAAAAGATAGTGAAAAA
GCACCTGGCGAGAAAGAAGGAGGCAAGGTGATTTCAGGAAAAGCTTAA

>g5147.t8 Gene=g5147 Length=454
MASNVDDLISSHLDDKIDMIAATSVLQQQASDIRAQKINWQSYHQSQMISNEDFNCITAL
DGEKKAQYLKDNQYQSAKTFLNLLSHVSKDTTIQYLLVMIDDLLTEDRTRVDIFLDFASK
RKETVWGPFLSLLNRSDGFIIHMASRIIAKLACWGQDQMPKSDLNFYLQWLKDQLTVSDN
EYIQSVGRCLQMMLRVDEYRFAFVTVDGISTLISILSSRVNFQVQYQLVFCLWVLTFNPL
LAEKMNKFNVIPILADILSDCAKEKVTRIILAVFRNLIEKPEDAQVSKEHCIAMVQCKVL
KQLSILEQRRFDDEDITSDVEFLTERLQTSVQDLSSFDEYATEIKSGRLEWSPVHKSAKF
WRENAQRLNEKNYELLRILIHLLDTSRDPLVLSVASFDIGEYVRHYPRGKHVIEQLNGKQ
LVMQLLGHDDPNVRYEALLAVQKLMVHNWEYLGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g5147.t8 CDD cd00256 VATPase_H 24 450 0.0
6 g5147.t8 Gene3D G3DSA:1.25.10.10 - 16 335 8.8E-52
7 g5147.t8 Gene3D G3DSA:1.25.40.150 - 347 449 8.6E-38
3 g5147.t8 PANTHER PTHR10698:SF0 V-TYPE PROTON ATPASE SUBUNIT H 25 453 5.3E-159
4 g5147.t8 PANTHER PTHR10698 V-TYPE PROTON ATPASE SUBUNIT H 25 453 5.3E-159
13 g5147.t8 PIRSF PIRSF032184 V-ATP_synth_H 15 454 1.9E-127
2 g5147.t8 Pfam PF03224 V-ATPase subunit H 24 327 9.0E-123
1 g5147.t8 Pfam PF11698 V-ATPase subunit H 334 449 1.2E-45
9 g5147.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 200 -
11 g5147.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 201 218 -
10 g5147.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 219 223 -
12 g5147.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 224 242 -
8 g5147.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 243 454 -
17 g5147.t8 SMART SM00185 arm_5 195 237 44.0
16 g5147.t8 SMART SM00185 arm_5 238 279 5.1
15 g5147.t8 SMART SM00185 arm_5 406 446 120.0
5 g5147.t8 SUPERFAMILY SSF48371 ARM repeat 17 450 4.66E-147

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5147/g5147.t8; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5147.t8.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