General information for g13625.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein VAC14-like protein.
Parent gene
- The parent gene g13625 is located on chr_1: 31341602..31343362 (+ 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_1 | g13625 | g13625.t4 | TSS | g13625.t4 | 31341042 | 31341042 |
| chr_1 | g13625 | g13625.t4 | isoform | g13625.t4 | 31341602 | 31343362 |
| chr_1 | g13625 | g13625.t4 | exon | g13625.t4.exon1 | 31341602 | 31342525 |
| chr_1 | g13625 | g13625.t4 | cds | g13625.t4.CDS1 | 31341735 | 31342525 |
| chr_1 | g13625 | g13625.t4 | exon | g13625.t4.exon2 | 31342583 | 31342840 |
| chr_1 | g13625 | g13625.t4 | cds | g13625.t4.CDS2 | 31342583 | 31342840 |
| chr_1 | g13625 | g13625.t4 | exon | g13625.t4.exon3 | 31342906 | 31342976 |
| chr_1 | g13625 | g13625.t4 | cds | g13625.t4.CDS3 | 31342906 | 31342976 |
| chr_1 | g13625 | g13625.t4 | exon | g13625.t4.exon4 | 31343031 | 31343193 |
| chr_1 | g13625 | g13625.t4 | cds | g13625.t4.CDS4 | 31343031 | 31343193 |
| chr_1 | g13625 | g13625.t4 | exon | g13625.t4.exon5 | 31343248 | 31343362 |
| chr_1 | g13625 | g13625.t4 | cds | g13625.t4.CDS5 | 31343248 | 31343362 |
| chr_1 | g13625 | g13625.t4 | TTS | g13625.t4 | NA | NA |
Sequences
>g13625.t4 Gene=g13625 Length=1531
TGAAAACTCGAGTGTTTTTGATCTTCAATCATTCATTCCATTATTAAGAGAAAGAGTGTT
GTGTAAAAACTCATTTGCTAGACAATTCACCATTTCATGGGTCTCTATTTTAAATGCTTG
CCCAGATATTAACATGATATTCTATTTAAATGAAATATTAGATGGACTCTTTTCAATGCT
TGATGATAATGCAGAAATTCAAAGAATGTGCGAAACTCTTTTGCAACAATTTTTGAAAAA
TATCAAGCATGATCCTACTTCATGTGACTTGGCTAAAATGACAAATATTCTAATATTGCA
TGCACAGAATGGAAATCATGAACTAATACAATTTACTGCAATCACTTGGCTTAGAGAATT
TTTACATATTTCTGGTGTTCAAATGCTGCCATATGCAAGTGGAATATTTTCAGCAATACT
GCCATGTTTAGCTTATGAGAGCGAATCAAAAAAGAATATCAAAGACAATGCTATTCTTGT
GAATAAACTTATGCTCGATCTCATTTCGTCTAAAGAGAATGTAAATGTAATTGAAAACGT
TGATCTTGAATCAGTTATGCAAGTACTCAAAATGCATTTAGTTCATAGTTCTGTGAATAC
AAAAGTTCATACATTGAGTTGGATTCATCATTTCTTCATAGAAGCTGAAAGTGAAATGTC
GAAAAACGCTGGAAATTTGCTTCCTGTTTTGTTGAGTATTTTGAACGATTCATGTGATGA
AGTTGTATTAGAAGTACTTGCAGTGATTGCTGATATAGTAAAATCAACTAATGAACAAAA
TTCAGAATTTAATCAACTTAAATATAGAGAGTTTCTTGAAAGTCTTTTACAACTATTTCG
TGAAGATAAAAATTTTCTCGATAATCGTGGATCATTAATAATTAAGCATCTTTGTGCACT
TTTAAATGCAGAACATATCTATAGAACAATGGCTGAGATTTTATCAAATGACAAAGAGAA
TGTAAGGTTTGCATCAATAATTGTAAGGAAGCTTAATAGTATACTTTTTACTTCATCTGA
GCTGTTTGAATTACGAACGACATTGAGAAATATTCAAAATCAAAAGTCTGCAGATCTCTT
TACATGCCTCTATAAAAGTTGGTCTCATTGCCCTATTTCTACAATTTCAATTTGCTTATT
AGCAAACTGTTTTCAGCATGTGTCAGACTTAGTTTTATTATTTGAAATGACCGTTGACTA
CTTAGAAGAAATTGATAAATTAATTCAACTCATTGAGTCACCAATTTTTGCATCTTTGAG
ACTTACGTTAGTGTCAAAAAGTGCAGATTCTGAGAATCTTGCCAATGCTTTATATGGTTT
ACTTATGTTGATTCCTCAAACCAAACAATTTGATTTGCTTAAAAATCGTCTTCAATGCAT
TCCAATATCATGCATGACTAATTCATCTCGCTCAGTACCATCAATAGAAAGTCAATCAGG
TATTGATTTTGAAAATCTAAAAAAACATTTTCAACATATTCAAAAATTACATCAACATAA
ACGCAAAATTAGCATAATCTTAAATAGTTAA
>g13625.t4 Gene=g13625 Length=465
MIFYLNEILDGLFSMLDDNAEIQRMCETLLQQFLKNIKHDPTSCDLAKMTNILILHAQNG
NHELIQFTAITWLREFLHISGVQMLPYASGIFSAILPCLAYESESKKNIKDNAILVNKLM
LDLISSKENVNVIENVDLESVMQVLKMHLVHSSVNTKVHTLSWIHHFFIEAESEMSKNAG
NLLPVLLSILNDSCDEVVLEVLAVIADIVKSTNEQNSEFNQLKYREFLESLLQLFREDKN
FLDNRGSLIIKHLCALLNAEHIYRTMAEILSNDKENVRFASIIVRKLNSILFTSSELFEL
RTTLRNIQNQKSADLFTCLYKSWSHCPISTISICLLANCFQHVSDLVLLFEMTVDYLEEI
DKLIQLIESPIFASLRLTLVSKSADSENLANALYGLLMLIPQTKQFDLLKNRLQCIPISC
MTNSSRSVPSIESQSGIDFENLKKHFQHIQKLHQHKRKISIILNS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g13625.t4 | Gene3D | G3DSA:1.25.10.10 | - | 5 | 197 | 6e-07 |
| 2 | g13625.t4 | PANTHER | PTHR16023 | TAX1 BINDING PROTEIN-RELATED | 1 | 458 | 0e+00 |
| 1 | g13625.t4 | Pfam | PF11916 | Vacuolar protein 14 C-terminal Fig4p binding | 240 | 416 | 0e+00 |
| 3 | g13625.t4 | SUPERFAMILY | SSF48371 | ARM repeat | 4 | 404 | 0e+00 |
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:0070772 | PAS complex | CC |
| GO:0006661 | phosphatidylinositol biosynthetic process | BP |
KEGG
Orthology
- This transcript has been annotated with K15305 (vacuole morphology and inheritance protein 14)
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.
