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.t3 TTS g7985.t3 27472760 27472760
chr_2 g7985 g7985.t3 isoform g7985.t3 27473682 27475565
chr_2 g7985 g7985.t3 exon g7985.t3.exon1 27473682 27474408
chr_2 g7985 g7985.t3 cds g7985.t3.CDS1 27473684 27474408
chr_2 g7985 g7985.t3 exon g7985.t3.exon2 27474469 27474594
chr_2 g7985 g7985.t3 cds g7985.t3.CDS2 27474469 27474594
chr_2 g7985 g7985.t3 exon g7985.t3.exon3 27474654 27474712
chr_2 g7985 g7985.t3 cds g7985.t3.CDS3 27474654 27474712
chr_2 g7985 g7985.t3 exon g7985.t3.exon4 27474776 27475060
chr_2 g7985 g7985.t3 cds g7985.t3.CDS4 27474776 27475060
chr_2 g7985 g7985.t3 exon g7985.t3.exon5 27475120 27475214
chr_2 g7985 g7985.t3 cds g7985.t3.CDS5 27475120 27475214
chr_2 g7985 g7985.t3 exon g7985.t3.exon6 27475276 27475498
chr_2 g7985 g7985.t3 cds g7985.t3.CDS6 27475276 27475407
chr_2 g7985 g7985.t3 exon g7985.t3.exon7 27475557 27475565
chr_2 g7985 g7985.t3 TSS g7985.t3 27475663 27475663

Sequences

>g7985.t3 Gene=g7985 Length=1524
ATGTCAGTTCGAATGAAAGCCACAAAGTGTCCAACTGACGAGCTCTCGTTGAAAAATCGA
GCAATAGTACATCCATCAGATTTTGGAAACAACGAAAATTATGTTGACGTTTCAACTGGT
CCAGGTCAACATTTTATTTTTGCAATTGAAAGGAGTGTTGAAGTTCCACCAAAATTTGTT
GGCTTTTCACTTTTGCAAAGAAAATGGGCTACACTCTCCATTAATCAAGTTTGATATTGA
TGTCAAACCGTTCCGTTTTGAAGGATCTGGAAATGAACATGTTGTTTGTAATGTTTCATT
AGAAGTTGACTTTTTACAGAAGAAAACCATAACTCAAGAACCCTATGATTCAGATTTGAT
GGCAAAAGAATTTCTTATGCAATTTGCTGGTTTAGCATTGACGGTCGGTCAACCTTTGGT
CTTCAGTTTCATGGATAAGAAACTCTTAGGCTTGAATATCAAGTCAATTGAGGCTATTGA
TGCTTCATCTATTCGTGATAATAAAAATGCCGAGCCAAGAAAAATCAATTTTGGACGCCT
TACAGGCAATGCAGTCATTCAATTTGAGAAAGCTGAAAATTCTTCTCTTAATTTAGTTGG
AAAGGCAAAAGGAAAAGTTGTAAGGCAATCAATAATCAACCCTGATTGGGACTTTGGAAA
AATGGGAATTGGTGGTTTGGATAAAGAGTTCAATGCTATTTTCCGAAGAGCTTTTGCTTC
ACGAGTTTTTCCACCAGAAGTAATTGAGCAACTCGGGTGCAAACATGTCAAAGGCATATT
GCTTTATGGTCCTCCAGGCACTGGTAAAACTTTGATGGCTCGACAAATTGGAAATATGTT
AAATGCACGTGAACCAAAAATTGTGAATGGACCACAAATTTTGGATAAATATGTTGGTGA
AAGTGAAGCAAATATCAGACGTCTTTTTGCGGAAGCAGAAGAAGAAGAAAAGAGACTTGG
ACCCAACAGTGGTCTTCACATTATCATATTCGATGAAATTGATGCAATTTGTAAATCTCG
TGGCTCTGTTGCTGGCAATTCTGGAGTTCACGATACGGTTGTGAATCAGCTGCTCGCTAA
GATTGATGGTGTTGAGCAGTTGAACAATATTCTTGTTATTGGTATGACAAACAGAAGAGA
CATGATTGATGAAGCTCTTTTGCGTCCAGGTCGTTTGGAAGTTCAAATGGAAATTAGTTT
GCCAAATGAAGCTGGTCGTGTACAAATCTTAAACATTCACACTAAAAGAATGCGTGATTT
TAAGAAAATTGATCCTGATGTGAATACAGTGGAACTTGCGGCTTTGACTAAAAATTTCAG
CGGTGCTGAATTAGAAGGTTTAGTACGTGCTGCTCAATCAACAGCTATGAATCGGTTAAT
CAAAGCATCATCAAAAGTAGAGGTTGATCCAGAAGCTATGGAAAAATTGCTCGTTTGCAG
AAATGATTTTCTTCATGCTCTTGAGAATGATATCAAACCTGCTTTTGGTGCAGCAGCTGA
AATGTTGGATAGTTTCTTATCACG

>g7985.t3 Gene=g7985 Length=474
MLTFQLVQVNILFLQLKGVLKFHQNLLAFHFCKENGLHSPLIKFDIDVKPFRFEGSGNEH
VVCNVSLEVDFLQKKTITQEPYDSDLMAKEFLMQFAGLALTVGQPLVFSFMDKKLLGLNI
KSIEAIDASSIRDNKNAEPRKINFGRLTGNAVIQFEKAENSSLNLVGKAKGKVVRQSIIN
PDWDFGKMGIGGLDKEFNAIFRRAFASRVFPPEVIEQLGCKHVKGILLYGPPGTGKTLMA
RQIGNMLNAREPKIVNGPQILDKYVGESEANIRRLFAEAEEEEKRLGPNSGLHIIIFDEI
DAICKSRGSVAGNSGVHDTVVNQLLAKIDGVEQLNNILVIGMTNRRDMIDEALLRPGRLE
VQMEISLPNEAGRVQILNIHTKRMRDFKKIDPDVNTVELAALTKNFSGAELEGLVRAAQS
TAMNRLIKASSKVEVDPEAMEKLLVCRNDFLHALENDIKPAFGAAAEMLDSFLS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g7985.t3 CDD cd00009 AAA 224 367 4.74833E-21
11 g7985.t3 Coils Coil Coil 265 285 -
9 g7985.t3 Gene3D G3DSA:3.10.330.10 - 55 165 2.2E-38
8 g7985.t3 Gene3D G3DSA:3.40.50.300 - 184 367 7.7E-49
10 g7985.t3 Gene3D G3DSA:1.10.8.60 - 368 457 4.9E-19
4 g7985.t3 PANTHER PTHR23078 VESICULAR-FUSION PROTEIN NSF 43 471 4.2E-199
5 g7985.t3 PANTHER PTHR23078:SF3 VESICLE-FUSING ATPASE 43 471 4.2E-199
2 g7985.t3 Pfam PF02933 Cell division protein 48 (CDC48), domain 2 81 134 6.0E-7
1 g7985.t3 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 226 366 2.7E-40
3 g7985.t3 Pfam PF17862 AAA+ lid domain 393 429 2.3E-8
13 g7985.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 90 -
14 g7985.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 91 111 -
12 g7985.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 112 474 -
16 g7985.t3 ProSitePatterns PS00674 AAA-protein family signature. 337 355 -
18 g7985.t3 SMART SM01072 CDC48_2_2 81 153 4.2E-4
17 g7985.t3 SMART SM00382 AAA_5 222 369 3.1E-17
7 g7985.t3 SUPERFAMILY SSF54585 Cdc48 domain 2-like 57 170 1.11E-29
6 g7985.t3 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 190 455 1.11E-50

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

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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. There were no conditions that were differentially expressed