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.t14 TSS g5147.t14 7281189 7281189
chr_2 g5147 g5147.t14 isoform g5147.t14 7281418 7284128
chr_2 g5147 g5147.t14 exon g5147.t14.exon1 7281418 7281681
chr_2 g5147 g5147.t14 cds g5147.t14.CDS1 7281421 7281681
chr_2 g5147 g5147.t14 exon g5147.t14.exon2 7281740 7281958
chr_2 g5147 g5147.t14 cds g5147.t14.CDS2 7281740 7281958
chr_2 g5147 g5147.t14 exon g5147.t14.exon3 7283058 7283192
chr_2 g5147 g5147.t14 cds g5147.t14.CDS3 7283058 7283192
chr_2 g5147 g5147.t14 exon g5147.t14.exon4 7283250 7283812
chr_2 g5147 g5147.t14 cds g5147.t14.CDS4 7283250 7283812
chr_2 g5147 g5147.t14 exon g5147.t14.exon5 7283873 7284001
chr_2 g5147 g5147.t14 cds g5147.t14.CDS5 7283873 7284001
chr_2 g5147 g5147.t14 exon g5147.t14.exon6 7284052 7284128
chr_2 g5147 g5147.t14 cds g5147.t14.CDS6 7284052 7284073
chr_2 g5147 g5147.t14 TTS g5147.t14 7284480 7284480

Sequences

>g5147.t14 Gene=g5147 Length=1387
GATATGATTGCTGCTACTAGTGTCTTACAGCAACAAGCTAGTGACATTCGAGCTCAGAAA
ATCAATTGGCAATCATATCATCAATCTCAGATGATTTCGAATGAAGATTTTAATTGCATC
ACGGCTCTTGATGGCGAGAAGAAAGCTCAATATTTGAAAGATAATCAGTATCAGAGCGCA
AAAACCTTTCTGAATCTTCTCAGTCATGTGTCGAAAGATACAACAATTCAATACTTGCTT
GTCATGATTGATGACTTACTTACTGAGGATCGAACTCGTGTCGATATATTTTTGGATTTT
GCTTCTAAACGTAAAGAAACTGTTTGGGGACCTTTCCTTTCTTTATTGAATCGCTCTGAT
GGCTTCATCATTCATATGGCATCAAGAATTATCGCTAAATTGGCATGCTGGGGTCAAGAT
CAAATGCCCAAATCAGACTTAAACTTCTACTTGCAATGGCTTAAAGATCAACTTACAGTC
AGCGATAATGAATACATTCAATCAGTTGGACGTTGTTTGCAAATGATGCTCAGAGTTGAT
GAATATCGTTTTGCCTTTGTTACAGTTGATGGCATCAGTACTTTGATTTCTATTCTTTCA
TCACGTGTTAATTTCCAAGTGCAATATCAACTTGTATTTTGCTTATGGGTTTTGACTTTC
AATCCTCTTCTTGCTGAGAAGATGAATAAATTCAATGTTATTCCAATTCTTGCTGATATT
CTTAGTGATTGTGCAAAGGAGAAAGTTACACGCATTATACTCGCCGTCTTTAGAAATTTG
ATCGAAAAGCCAGAGGATGCACAAGTGTCGAAGGAACACTGCATTGCAATGGTTCAATGT
AAAGTTCTCAAACAATTGTCCATTCTCGAGCAACGTCGTTTTGACGATGAAGACATTACG
TCTGATGTTGAATTTCTAACAGAAAGATTGCAGACATCTGTTCAAGATTTGTCTTCATTT
GATGAATATGCAACTGAAATCAAGAGCGGACGCTTAGAATGGTCACCTGTGCACAAATCA
GCTAAATTCTGGCGTGAAAATGCACAACGTTTGAATGAGAAGAATTATGAATTGCTTAGA
ATTTTAATTCATTTACTGGACACATCACGCGATCCATTAGTTCTCTCAGTTGCCAGTTTT
GACATTGGTGAATATGTTCGTCATTATCCAAGAGGAAAGCATGTTATTGAACAATTGAAT
GGTAAACAATTGGTAATGCAACTTCTCGGACATGATGATCCCAATGTACGTTATGAGGCT
CTTTTAGCTGTTCAAAAATTAATGGTTCACAATTGGGAATACTTAGGTAAGAAAACAATT
GGAAAAAGATAGTGAAAAAGCACCTGGCGAGAAAGAAGGAGGCAAGGTGATTTCAGGAAA
AGCTTAA

>g5147.t14 Gene=g5147 Length=442
MIAATSVLQQQASDIRAQKINWQSYHQSQMISNEDFNCITALDGEKKAQYLKDNQYQSAK
TFLNLLSHVSKDTTIQYLLVMIDDLLTEDRTRVDIFLDFASKRKETVWGPFLSLLNRSDG
FIIHMASRIIAKLACWGQDQMPKSDLNFYLQWLKDQLTVSDNEYIQSVGRCLQMMLRVDE
YRFAFVTVDGISTLISILSSRVNFQVQYQLVFCLWVLTFNPLLAEKMNKFNVIPILADIL
SDCAKEKVTRIILAVFRNLIEKPEDAQVSKEHCIAMVQCKVLKQLSILEQRRFDDEDITS
DVEFLTERLQTSVQDLSSFDEYATEIKSGRLEWSPVHKSAKFWRENAQRLNEKNYELLRI
LIHLLDTSRDPLVLSVASFDIGEYVRHYPRGKHVIEQLNGKQLVMQLLGHDDPNVRYEAL
LAVQKLMVHNWEYLGKKTIGKR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g5147.t14 CDD cd00256 VATPase_H 6 432 0.0
6 g5147.t14 Gene3D G3DSA:1.25.10.10 - 1 317 7.3E-52
7 g5147.t14 Gene3D G3DSA:1.25.40.150 - 329 431 8.2E-38
3 g5147.t14 PANTHER PTHR10698:SF0 V-TYPE PROTON ATPASE SUBUNIT H 7 435 5.2E-159
4 g5147.t14 PANTHER PTHR10698 V-TYPE PROTON ATPASE SUBUNIT H 7 435 5.2E-159
13 g5147.t14 PIRSF PIRSF032184 V-ATP_synth_H 1 437 1.8E-127
2 g5147.t14 Pfam PF03224 V-ATPase subunit H 6 309 8.3E-123
1 g5147.t14 Pfam PF11698 V-ATPase subunit H 316 431 1.2E-45
8 g5147.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 182 -
12 g5147.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 183 200 -
10 g5147.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 201 205 -
11 g5147.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 206 224 -
9 g5147.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 225 442 -
17 g5147.t14 SMART SM00185 arm_5 177 219 44.0
16 g5147.t14 SMART SM00185 arm_5 220 261 5.1
15 g5147.t14 SMART SM00185 arm_5 388 428 120.0
5 g5147.t14 SUPERFAMILY SSF48371 ARM repeat 2 432 1.65E-146

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5147/g5147.t14; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5147.t14.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