Gene loci information

Transcript annotation

  • This transcript has been annotated as Vesicle-fusing ATPase 1.

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 g7985 g7985.t1 TTS g7985.t1 27472760 27472760
chr_2 g7985 g7985.t1 isoform g7985.t1 27472889 27475565
chr_2 g7985 g7985.t1 exon g7985.t1.exon1 27472889 27473021
chr_2 g7985 g7985.t1 cds g7985.t1.CDS1 27472889 27473021
chr_2 g7985 g7985.t1 exon g7985.t1.exon2 27473091 27474408
chr_2 g7985 g7985.t1 cds g7985.t1.CDS2 27473091 27474408
chr_2 g7985 g7985.t1 exon g7985.t1.exon3 27474469 27474594
chr_2 g7985 g7985.t1 cds g7985.t1.CDS3 27474469 27474594
chr_2 g7985 g7985.t1 exon g7985.t1.exon4 27474654 27474712
chr_2 g7985 g7985.t1 cds g7985.t1.CDS4 27474654 27474712
chr_2 g7985 g7985.t1 exon g7985.t1.exon5 27474776 27475060
chr_2 g7985 g7985.t1 cds g7985.t1.CDS5 27474776 27475060
chr_2 g7985 g7985.t1 exon g7985.t1.exon6 27475120 27475214
chr_2 g7985 g7985.t1 cds g7985.t1.CDS6 27475120 27475214
chr_2 g7985 g7985.t1 exon g7985.t1.exon7 27475280 27475498
chr_2 g7985 g7985.t1 cds g7985.t1.CDS7 27475280 27475498
chr_2 g7985 g7985.t1 exon g7985.t1.exon8 27475557 27475565
chr_2 g7985 g7985.t1 cds g7985.t1.CDS8 27475557 27475565
chr_2 g7985 g7985.t1 TSS g7985.t1 27475663 27475663

Sequences

>g7985.t1 Gene=g7985 Length=2244
ATGTCAGTTCGAATGAAAGCCACAAAGTGTCCAACTGACGAGCTCTCGTTGAAAAATCGA
GCAATAGTACATCCATCAGATTTTGGAAACAACGAAAATTATGTTGACGTTTCAACTGGT
CCAGGTCAACATTTTATTTTTGCAATTGAAAGGAGTGTTGAAGTTCCACCAAAATTTGTT
GGCTTTTCACTTTTGCAAAGAAAATGGGCTACACTCTCCATTAATCAAGATATTGATGTC
AAACCGTTCCGTTTTGAAGGATCTGGAAATGAACATGTTGTTTGTAATGTTTCATTAGAA
GTTGACTTTTTACAGAAGAAAACCATAACTCAAGAACCCTATGATTCAGATTTGATGGCA
AAAGAATTTCTTATGCAATTTGCTGGTTTAGCATTGACGGTCGGTCAACCTTTGGTCTTC
AGTTTCATGGATAAGAAACTCTTAGGCTTGAATATCAAGTCAATTGAGGCTATTGATGCT
TCATCTATTCGTGATAATAAAAATGCCGAGCCAAGAAAAATCAATTTTGGACGCCTTACA
GGCAATGCAGTCATTCAATTTGAGAAAGCTGAAAATTCTTCTCTTAATTTAGTTGGAAAG
GCAAAAGGAAAAGTTGTAAGGCAATCAATAATCAACCCTGATTGGGACTTTGGAAAAATG
GGAATTGGTGGTTTGGATAAAGAGTTCAATGCTATTTTCCGAAGAGCTTTTGCTTCACGA
GTTTTTCCACCAGAAGTAATTGAGCAACTCGGGTGCAAACATGTCAAAGGCATATTGCTT
TATGGTCCTCCAGGCACTGGTAAAACTTTGATGGCTCGACAAATTGGAAATATGTTAAAT
GCACGTGAACCAAAAATTGTGAATGGACCACAAATTTTGGATAAATATGTTGGTGAAAGT
GAAGCAAATATCAGACGTCTTTTTGCGGAAGCAGAAGAAGAAGAAAAGAGACTTGGACCC
AACAGTGGTCTTCACATTATCATATTCGATGAAATTGATGCAATTTGTAAATCTCGTGGC
TCTGTTGCTGGCAATTCTGGAGTTCACGATACGGTTGTGAATCAGCTGCTCGCTAAGATT
GATGGTGTTGAGCAGTTGAACAATATTCTTGTTATTGGTATGACAAACAGAAGAGACATG
ATTGATGAAGCTCTTTTGCGTCCAGGTCGTTTGGAAGTTCAAATGGAAATTAGTTTGCCA
AATGAAGCTGGTCGTGTACAAATCTTAAACATTCACACTAAAAGAATGCGTGATTTTAAG
AAAATTGATCCTGATGTGAATACAGTGGAACTTGCGGCTTTGACTAAAAATTTCAGCGGT
GCTGAATTAGAAGGTTTAGTACGTGCTGCTCAATCAACAGCTATGAATCGGTTAATCAAA
GCATCATCAAAAGTAGAGGTTGATCCAGAAGCTATGGAAAAATTGCTCGTTTGCAGAAAT
GATTTTCTTCATGCTCTTGAGAATGATATCAAACCTGCTTTTGGTGCAGCAGCTGAAATG
TTGGATAGTTTCTTATCACGTGGCATCATAAATTGGGGAGCACCTGTCGGTCATATTTTA
GAAGATGGTGCATTATATACTGAACAAGTAAGAACATCAGAAACATCAAGCTTAGTATCA
ATTCTTTTAGAAGGCCCACCAAATGCAGGAAAGAGCGCTTTAGCAGCAAAGATTGCCAAG
TTATCAGACTTTCCTTTTACAAAAGTATGCTCACCTGATGATATGGTGGCATATACAGAA
TCTGCAAAATGTTTGCAAATTCGAAAAATTTTTGATGATGCATATCGTTCCACGTTGAGT
TGTATTGTTGTCGACAATATTGAGAGACTGTTGGACTATGGTCCAATTGGCCCACGTTAC
TCAAATATTACACTTCAAGCTCTGCTTGTTTTACTTAAGAAGCAACCGCCAAAGGGAAGA
AAACTTTTGGTGATTTGTACAAGCAGTCGTCGTCAAGTTCTCGAAGATATGGAAATGCTT
TCTGCTTTCACGTCAGTTTTACATGTCCCTAATTTATCAACGCCAGAACATTTAATTGCC
GTTCTAGAGGACAGTGATGTCTTCAACAAACAAGAAATTCAATCTATTTACAAAAAGATG
CAAGGATATAAAGTGTTTGTTGGGATCAAAAAATTACTTGATTTACTTGATATGGCACGT
TTCACTGAGCCACAACAACGAGTTATTAAGTTTTTGGCTAAGCTAGAAGAAGAAGGTGGC
TTAGAACCAATTGCAAGACATTAA

>g7985.t1 Gene=g7985 Length=747
MSVRMKATKCPTDELSLKNRAIVHPSDFGNNENYVDVSTGPGQHFIFAIERSVEVPPKFV
GFSLLQRKWATLSINQDIDVKPFRFEGSGNEHVVCNVSLEVDFLQKKTITQEPYDSDLMA
KEFLMQFAGLALTVGQPLVFSFMDKKLLGLNIKSIEAIDASSIRDNKNAEPRKINFGRLT
GNAVIQFEKAENSSLNLVGKAKGKVVRQSIINPDWDFGKMGIGGLDKEFNAIFRRAFASR
VFPPEVIEQLGCKHVKGILLYGPPGTGKTLMARQIGNMLNAREPKIVNGPQILDKYVGES
EANIRRLFAEAEEEEKRLGPNSGLHIIIFDEIDAICKSRGSVAGNSGVHDTVVNQLLAKI
DGVEQLNNILVIGMTNRRDMIDEALLRPGRLEVQMEISLPNEAGRVQILNIHTKRMRDFK
KIDPDVNTVELAALTKNFSGAELEGLVRAAQSTAMNRLIKASSKVEVDPEAMEKLLVCRN
DFLHALENDIKPAFGAAAEMLDSFLSRGIINWGAPVGHILEDGALYTEQVRTSETSSLVS
ILLEGPPNAGKSALAAKIAKLSDFPFTKVCSPDDMVAYTESAKCLQIRKIFDDAYRSTLS
CIVVDNIERLLDYGPIGPRYSNITLQALLVLLKKQPPKGRKLLVICTSSRRQVLEDMEML
SAFTSVLHVPNLSTPEHLIAVLEDSDVFNKQEIQSIYKKMQGYKVFVGIKKLLDLLDMAR
FTEPQQRVIKFLAKLEEEGGLEPIARH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g7985.t1 CDD cd00009 AAA 256 399 1.28927E-21
20 g7985.t1 CDD cd00009 AAA 531 670 3.34856E-7
18 g7985.t1 Coils Coil Coil 297 317 -
15 g7985.t1 Gene3D G3DSA:2.40.40.20 - 2 83 4.4E-31
14 g7985.t1 Gene3D G3DSA:3.10.330.10 - 87 197 4.6E-38
13 g7985.t1 Gene3D G3DSA:3.40.50.300 - 216 399 1.9E-48
17 g7985.t1 Gene3D G3DSA:1.10.8.60 - 400 489 9.8E-19
12 g7985.t1 Gene3D G3DSA:3.40.50.300 - 499 670 1.6E-30
16 g7985.t1 Gene3D G3DSA:1.10.8.60 - 671 737 3.6E-29
6 g7985.t1 PANTHER PTHR23078 VESICULAR-FUSION PROTEIN NSF 5 737 0.0
7 g7985.t1 PANTHER PTHR23078:SF3 VESICLE-FUSING ATPASE 5 737 0.0
5 g7985.t1 Pfam PF02359 Cell division protein 48 (CDC48), N-terminal domain 4 83 2.3E-9
3 g7985.t1 Pfam PF02933 Cell division protein 48 (CDC48), domain 2 113 166 1.1E-6
2 g7985.t1 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 258 398 6.0E-40
4 g7985.t1 Pfam PF17862 AAA+ lid domain 425 461 4.0E-8
1 g7985.t1 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 541 669 4.9E-10
21 g7985.t1 ProSitePatterns PS00674 AAA-protein family signature. 369 387 -
22 g7985.t1 SMART SM01073 CDC48_N_2 4 86 1.8E-13
25 g7985.t1 SMART SM01072 CDC48_2_2 113 185 4.2E-4
23 g7985.t1 SMART SM00382 AAA_5 254 401 3.1E-17
24 g7985.t1 SMART SM00382 AAA_5 537 673 6.5E-11
8 g7985.t1 SUPERFAMILY SSF50692 ADC-like 3 86 4.97E-23
11 g7985.t1 SUPERFAMILY SSF54585 Cdc48 domain 2-like 89 202 2.32E-29
9 g7985.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 222 488 2.98E-50
10 g7985.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 502 729 2.88E-25

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:0005524 ATP binding MF
GO:0035494 SNARE complex disassembly BP
GO:0016887 ATP hydrolysis activity 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