General information for g1003.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as V-type proton ATPase 116 kDa subunit a isoform 1.
Parent gene
- The parent gene g1003 is located on chr_3: 7412075..7413043 (+ strand)
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_3 | g1003 | g1003.t1 | TSS | g1003.t1 | 7409657 | 7409657 |
| chr_3 | g1003 | g1003.t1 | isoform | g1003.t1 | 7409818 | 7413043 |
| chr_3 | g1003 | g1003.t1 | exon | g1003.t1.exon1 | 7409818 | 7409845 |
| chr_3 | g1003 | g1003.t1 | cds | g1003.t1.CDS1 | 7409818 | 7409845 |
| chr_3 | g1003 | g1003.t1 | exon | g1003.t1.exon2 | 7410322 | 7410476 |
| chr_3 | g1003 | g1003.t1 | cds | g1003.t1.CDS2 | 7410322 | 7410476 |
| chr_3 | g1003 | g1003.t1 | exon | g1003.t1.exon3 | 7410537 | 7411061 |
| chr_3 | g1003 | g1003.t1 | cds | g1003.t1.CDS3 | 7410537 | 7411061 |
| chr_3 | g1003 | g1003.t1 | exon | g1003.t1.exon4 | 7411118 | 7412017 |
| chr_3 | g1003 | g1003.t1 | cds | g1003.t1.CDS4 | 7411118 | 7412017 |
| chr_3 | g1003 | g1003.t1 | exon | g1003.t1.exon5 | 7412075 | 7413043 |
| chr_3 | g1003 | g1003.t1 | cds | g1003.t1.CDS5 | 7412075 | 7413043 |
| chr_3 | g1003 | g1003.t1 | TTS | g1003.t1 | 7413172 | 7413172 |
Sequences
>g1003.t1 Gene=g1003 Length=2577
ATGGCAAACAAAACACAATATCGACAAATTCCGACATCGGAATCGCAAATAAAAAAGAGA
GCCAAGATGAATCCGTTGTTCAGGAGTGAAGAGATCACGCTGTGTCAAATGTTTATACAG
CCAGAAGCTGCCTATACTTCTGTGTCAGAATTAGGCGAGACAGGTGCAGTTCAGTTTCGC
GATTTAAATACTGAAGTCAATGCATTTCAACGCAAGTTTGTAAGTGAAGTTCGTCGATGT
GATGAAATGCAAAGAAAAATTCGTTATGTTGAAGCAGAATTGAAGAAGGATGGTGTAAAA
ATTAGGGATTGTCAGGAGGTTCCAAGAGCACCAAATCCTCGCGAAATAATTGATCTTGAA
GCGAAACTTGAGAAAACTGAAAATGAAATCATGGAACTTTCACAAAATGCAATTAACTTA
AAGACCAATTATTTAGAGTTGATCGAGCTTCGTCATGTGCTTAAGAAAACACAAGGATTT
TTCTATGATGAAAATGTTATTAGTACCGAAGCAATGCGCAATAATATGACTCAAGAAGAT
GCTACGGGTCAAGGTGCTAATCAAGGTCGCGGTCGTTTAGGATTTATTGCTGGCACCATT
CAAAGAGAAAGAGTTCCAGCTTTTGAGCGTATGTTATGGAGAATCAGTCGTGGTAATGTT
TTCTTGAGGCAAGCTGAAATGGATGAAACTTTGGAAGATCCTGAAACTGGCAATACACTC
TATAAAACCGTTTTTGTTGCATTCTTCCAAGGAGAAGAACTCAAGAATCGTATCAAGAAA
GTTTGTACCGGATTTCATGCCAGTCTCTATCCTTGCCCTTCTGCAAATGATGAACGTGAG
GAAATGCTGAAAGGTGTCTTAACTCGCTTGGAAGATTTAAATATGGTGCTTAATCAAACT
CAAGATCATCGTTCTCGTGTTTTGCATAATGTGTCAAAGGAACTTCCTCGTTGGTCAATT
ATGGTGAAGAAAATGAAGGCAATTTATCATACAATGAATCTTTTCAACATGGATGTTACA
AAAAAATGTTTGATCGGTGAATGTTGGGTTCCAGTGCTTGATTTGCACAAGGTTCAAAAA
GCATTATCTGATGGTAGTGCTGCTGTTGGTTCTACAATTCCTTCATTCTTAAATGTCATC
GAAACTAATGAAACAAAACCAACATTCAATCGTACGAATAAATTCACACGTGGCTTCCAA
AACCTTATTGATGCTTATGGAGTTGCAAGCTATCAAGAGGTCAATCCGGCATTGTACACA
ATTATCACCTTTCCATTTCTTTTTGGAATTATGTTTGGTGATTTAGGTCATGGTTTTATT
ATGTTTGCTTTTGGTTTTTGGATGGTTTCTGGTGAACGTAAATTGGGAGCAAAAAAATCC
AATAATGAAATCTGGAACATTTTCTTTGGTGGTCGTTACATTATTCTGCTCATGGGAATT
TTCTCAATGTATACTGGCTTTACATATAACGACGTATTCTCTAAATCAATGAACATTTTT
GGATCAAAATGGAGAATAAATTATAATGAAAGCACAATCATGAGTAATCCATTGCTACAA
CTTGATCCATCAAGCAATGATTTGATGGAAGGTGAAATTTATCCATGGGGTCTTGATCCT
ATTTGGCAGTTAGGAACAAACAAAATTATCTTTTTGAACTCTTACAAGATGAAGCTGTCA
ATCATTTTTGGTGTAGTTCATATGATTTTTGGTGTTTGCATGTCAACAGTCAATCACAAT
TTCTTCCGTAGACGTGTGTATATTCTACTCGAGTTTCTTCCACAAATAATTTTCTTGGTA
TTGCTATTTGCATACATGGTTTTCATGATGTTCTTCAAATGGGTGCTATACAATCCAAAA
GCTATTCCACCACATTCGCCAGGTTGTGCACCATCAGTTTTAATTATGTTTATTAACATG
ATGCTTTTCAAGAAATCACCACCACTTCATGGATGCAACGAATACATGTTTACAGATCAA
GAATTATTACAGAAAATTTTTGTCTTCATTGGACTTTTATGTATTCCATGGATGTTACTT
GGAAAGCCACTTTATATTATGTGCACACGAAAGAATAATAATAAAGTTCATAATGGTCAT
AATGGTGATGTCAACCAGGCAATGGAAATGACACCAGAAACACCAGAAGAGTTAGCACCA
GCAGCACATTCAGAATCACATGGCCATGAAGAAGAGCCTTTGAGTGAAATTTTCATTCAT
CAAGCAATACACACAATTGAATACGTGCTTAGTACAGTTTCACACACAGCTTCATATCTT
CGTTTATGGGCTCTGTCACTTGCACACGCTCAATTGTCTGAAGTATTATGGAATATGGTC
CTCGCATTGGGATTAAAATCAGACGATCCAATAAAAGGCCCAATTATGATTACAATCATG
TTTGCCGCATGGGCATGCTTTACTTTAGCGATCTTAGTTATGATGGAAGGTTTATCAGCA
TTCTTGCATACTTTGCGTTTGCATTGGGTCGAATTCATGAGCAAATTCTATGAAGGTCTC
GGATATGTCTTTCAACCATTTTCATTCAAACTGATTTTGGATGAAACAGATGAATAA
>g1003.t1 Gene=g1003 Length=858
MANKTQYRQIPTSESQIKKRAKMNPLFRSEEITLCQMFIQPEAAYTSVSELGETGAVQFR
DLNTEVNAFQRKFVSEVRRCDEMQRKIRYVEAELKKDGVKIRDCQEVPRAPNPREIIDLE
AKLEKTENEIMELSQNAINLKTNYLELIELRHVLKKTQGFFYDENVISTEAMRNNMTQED
ATGQGANQGRGRLGFIAGTIQRERVPAFERMLWRISRGNVFLRQAEMDETLEDPETGNTL
YKTVFVAFFQGEELKNRIKKVCTGFHASLYPCPSANDEREEMLKGVLTRLEDLNMVLNQT
QDHRSRVLHNVSKELPRWSIMVKKMKAIYHTMNLFNMDVTKKCLIGECWVPVLDLHKVQK
ALSDGSAAVGSTIPSFLNVIETNETKPTFNRTNKFTRGFQNLIDAYGVASYQEVNPALYT
IITFPFLFGIMFGDLGHGFIMFAFGFWMVSGERKLGAKKSNNEIWNIFFGGRYIILLMGI
FSMYTGFTYNDVFSKSMNIFGSKWRINYNESTIMSNPLLQLDPSSNDLMEGEIYPWGLDP
IWQLGTNKIIFLNSYKMKLSIIFGVVHMIFGVCMSTVNHNFFRRRVYILLEFLPQIIFLV
LLFAYMVFMMFFKWVLYNPKAIPPHSPGCAPSVLIMFINMMLFKKSPPLHGCNEYMFTDQ
ELLQKIFVFIGLLCIPWMLLGKPLYIMCTRKNNNKVHNGHNGDVNQAMEMTPETPEELAP
AAHSESHGHEEEPLSEIFIHQAIHTIEYVLSTVSHTASYLRLWALSLAHAQLSEVLWNMV
LALGLKSDDPIKGPIMITIMFAAWACFTLAILVMMEGLSAFLHTLRLHWVEFMSKFYEGL
GYVFQPFSFKLILDETDE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g1003.t1 | Coils | Coil | Coil | 116 | 143 | - |
| 2 | g1003.t1 | PANTHER | PTHR11629 | VACUOLAR PROTON ATPASES | 23 | 856 | 0.0 |
| 3 | g1003.t1 | PANTHER | PTHR11629:SF61 | V-TYPE PROTON ATPASE SUBUNIT A | 23 | 856 | 0.0 |
| 28 | g1003.t1 | PIRSF | PIRSF001293 | ATP6V0A1 | 22 | 858 | 4.8E-305 |
| 1 | g1003.t1 | Pfam | PF01496 | V-type ATPase 116kDa subunit family | 49 | 849 | 0.0 |
| 16 | g1003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 417 | - |
| 23 | g1003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 418 | 444 | - |
| 14 | g1003.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 445 | 463 | - |
| 26 | g1003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 464 | 487 | - |
| 18 | g1003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 488 | 558 | - |
| 25 | g1003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 559 | 577 | - |
| 13 | g1003.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 578 | 588 | - |
| 24 | g1003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 589 | 612 | - |
| 19 | g1003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 613 | 623 | - |
| 21 | g1003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 624 | 642 | - |
| 12 | g1003.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 643 | 661 | - |
| 22 | g1003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 662 | 680 | - |
| 15 | g1003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 681 | 761 | - |
| 20 | g1003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 762 | 783 | - |
| 11 | g1003.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 784 | 794 | - |
| 27 | g1003.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 795 | 815 | - |
| 17 | g1003.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 816 | 858 | - |
| 7 | g1003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 429 | 451 | - |
| 5 | g1003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 464 | 486 | - |
| 9 | g1003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 560 | 582 | - |
| 8 | g1003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 589 | 611 | - |
| 6 | g1003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 666 | 688 | - |
| 4 | g1003.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 793 | 815 | - |
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:0033179 | proton-transporting V-type ATPase, V0 domain | CC |
| GO:1902600 | proton transmembrane transport | BP |
| GO:0000220 | vacuolar proton-transporting V-type ATPase, V0 domain | CC |
| GO:0015078 | proton transmembrane transporter activity | MF |
KEGG
Orthology
- This transcript has been annotated with K02154 (V-type H+-transporting ATPase subunit a)
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.
