General information for g7985.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Vesicle-fusing ATPase 1.
Parent gene
- The parent gene g7985 is located on chr_2: 27475051..27475565 (- 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_2 | g7985 | g7985.t4 | isoform | g7985.t4 | 27474402 | 27475565 |
| chr_2 | g7985 | g7985.t4 | exon | g7985.t4.exon1 | 27474402 | 27474408 |
| chr_2 | g7985 | g7985.t4 | cds | g7985.t4.CDS1 | 27474404 | 27474408 |
| chr_2 | g7985 | g7985.t4 | exon | g7985.t4.exon2 | 27474469 | 27474594 |
| chr_2 | g7985 | g7985.t4 | cds | g7985.t4.CDS2 | 27474469 | 27474594 |
| chr_2 | g7985 | g7985.t4 | exon | g7985.t4.exon3 | 27474654 | 27474712 |
| chr_2 | g7985 | g7985.t4 | cds | g7985.t4.CDS3 | 27474654 | 27474712 |
| chr_2 | g7985 | g7985.t4 | exon | g7985.t4.exon4 | 27474776 | 27475060 |
| chr_2 | g7985 | g7985.t4 | cds | g7985.t4.CDS4 | 27474776 | 27475060 |
| chr_2 | g7985 | g7985.t4 | exon | g7985.t4.exon5 | 27475120 | 27475498 |
| chr_2 | g7985 | g7985.t4 | cds | g7985.t4.CDS5 | 27475120 | 27475238 |
| chr_2 | g7985 | g7985.t4 | exon | g7985.t4.exon6 | 27475557 | 27475565 |
| chr_2 | g7985 | g7985.t4 | TSS | g7985.t4 | 27475663 | 27475663 |
| chr_2 | g7985 | g7985.t4 | TTS | g7985.t4 | NA | NA |
Sequences
>g7985.t4 Gene=g7985 Length=865
ATGTCAGTTCGAATGAAAGCCACAAAGTGTCCAACTGACGAGCTCTCGTTGAAAAATCGA
GCAATAGTACATCCATCAGATTTTGGAAACAACGAAAATTATGTTGACGTTTCAACTGGT
CCAGGTCAACATTTTATTTTTGCAATTGAAAGGAGTGTTGAAGTTCCACCAAAATTTGTT
GGCTTTTCACTTTTGCAAAGAAAATGGGCTACACTCTCCATTAATCAAGTTTGTATTTTA
GGTTTAAAATAAATTATGAAATCATATATATGTTGATGAATCACACTCTACAGGATATTG
ATGTCAAACCGTTCCGTTTTGAAGGATCTGGAAATGAACATGTTGTTTGTAATGTTTCAT
TAGAAGTTGACTTTTTACAGAAGAAAACCATAACTCAAGAACCCTATGATTCAGATTTGA
TGGCAAAAGAATTTCTTATGCAATTTGCTGGTTTAGCATTGACGGTCGGTCAACCTTTGG
TCTTCAGTTTCATGGATAAGAAACTCTTAGGCTTGAATATCAAGTCAATTGAGGCTATTG
ATGCTTCATCTATTCGTGATAATAAAAATGCCGAGCCAAGAAAAATCAATTTTGGACGCC
TTACAGGCAATGCAGTCATTCAATTTGAGAAAGCTGAAAATTCTTCTCTTAATTTAGTTG
GAAAGGCAAAAGGAAAAGTTGTAAGGCAATCAATAATCAACCCTGATTGGGACTTTGGAA
AAATGGGAATTGGTGGTTTGGATAAAGAGTTCAATGCTATTTTCCGAAGAGCTTTTGCTT
CACGAGTTTTTCCACCAGAAGTAATTGAGCAACTCGGGTGCAAACATGTCAAAGGCATAT
TGCTTTATGGTCCTCCAGGCACTGG
>g7985.t4 Gene=g7985 Length=198
MLMNHTLQDIDVKPFRFEGSGNEHVVCNVSLEVDFLQKKTITQEPYDSDLMAKEFLMQFA
GLALTVGQPLVFSFMDKKLLGLNIKSIEAIDASSIRDNKNAEPRKINFGRLTGNAVIQFE
KAENSSLNLVGKAKGKVVRQSIINPDWDFGKMGIGGLDKEFNAIFRRAFASRVFPPEVIE
QLGCKHVKGILLYGPPGT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g7985.t4 | Gene3D | G3DSA:3.10.330.10 | - | 18 | 129 | 3.3E-39 |
| 2 | g7985.t4 | PANTHER | PTHR23078 | VESICULAR-FUSION PROTEIN NSF | 8 | 198 | 1.3E-55 |
| 3 | g7985.t4 | PANTHER | PTHR23078:SF3 | VESICLE-FUSING ATPASE | 8 | 198 | 1.3E-55 |
| 1 | g7985.t4 | Pfam | PF02933 | Cell division protein 48 (CDC48), domain 2 | 45 | 98 | 1.5E-7 |
| 9 | g7985.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 54 | - |
| 10 | g7985.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 55 | 75 | - |
| 8 | g7985.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 76 | 198 | - |
| 6 | g7985.t4 | SMART | SM01072 | CDC48_2_2 | 45 | 117 | 4.2E-4 |
| 5 | g7985.t4 | SUPERFAMILY | SSF54585 | Cdc48 domain 2-like | 21 | 134 | 1.6E-30 |
| 4 | g7985.t4 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 143 | 198 | 6.64E-5 |
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: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.
