General information for g3047.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative RUN and FYVE domain-containing protein 2.
Parent gene
- The parent gene g3047 is located on chr_3: 22333741..22334701 (- 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 | g3047 | g3047.t1 | TTS | g3047.t1 | 22332788 | 22332788 |
| chr_3 | g3047 | g3047.t1 | isoform | g3047.t1 | 22333741 | 22334701 |
| chr_3 | g3047 | g3047.t1 | exon | g3047.t1.exon1 | 22333741 | 22333799 |
| chr_3 | g3047 | g3047.t1 | cds | g3047.t1.CDS1 | 22333741 | 22333799 |
| chr_3 | g3047 | g3047.t1 | exon | g3047.t1.exon2 | 22333858 | 22333922 |
| chr_3 | g3047 | g3047.t1 | cds | g3047.t1.CDS2 | 22333858 | 22333922 |
| chr_3 | g3047 | g3047.t1 | exon | g3047.t1.exon3 | 22333986 | 22334462 |
| chr_3 | g3047 | g3047.t1 | cds | g3047.t1.CDS3 | 22333986 | 22334462 |
| chr_3 | g3047 | g3047.t1 | exon | g3047.t1.exon4 | 22334685 | 22334701 |
| chr_3 | g3047 | g3047.t1 | cds | g3047.t1.CDS4 | 22334685 | 22334701 |
| chr_3 | g3047 | g3047.t1 | TSS | g3047.t1 | NA | NA |
Sequences
>g3047.t1 Gene=g3047 Length=618
ATGCAATTAGAAAAAAAACATTCATCAGACTTGGCATCGTTCAAGTCATTAGAGGATGCA
AGTAAAGCTCTGACAGCACAAATTGTTGTGAGTGAAGAGAAATTGTCGCGTGCTGAAGCA
GATTTAAGAATTGAAAGGGAATGGCGTAGTGCATTACAAGGGAAAGAGCATGAATACAAG
GAAGCTATCACAAAATTACAAACAAAAATCAATCAGCTAACAGAAGAATCGAAAAAGTGT
GAAAAAACAAAGAATGAACTTGAACGATTACGCAAAAAATACAACGAAGATCAACAAACT
TTGGAAGAACTTGGACATCAATTGAGCATGACAAAGCTACAGGTGTCTGAAATGAAAGAG
AGATCGAGAATTGCTGAAGAACTTGGAAATGGAAAAATTCTTGCTTCTTCAGAATGGACT
CCTGATGAATCTGCATCAAATTGTTATTGTTGTAATTCTGGATTTTCATTAACTAAACGA
AAACATCACTGCAGGAGTTGTGGAAATGTTGTTTGTAAAAGTTGTTCTGAACATGTATTA
CCATTAGAAGAAAAGAATGGAGTGTTAGGAAAGCCTGTTCGAGTGTGCGATACATGCTGG
CAGACACATGTTAATTAA
>g3047.t1 Gene=g3047 Length=205
MQLEKKHSSDLASFKSLEDASKALTAQIVVSEEKLSRAEADLRIEREWRSALQGKEHEYK
EAITKLQTKINQLTEESKKCEKTKNELERLRKKYNEDQQTLEELGHQLSMTKLQVSEMKE
RSRIAEELGNGKILASSEWTPDESASNCYCCNSGFSLTKRKHHCRSCGNVVCKSCSEHVL
PLEEKNGVLGKPVRVCDTCWQTHVN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3047.t1 | CDD | cd00890 | Prefoldin | 56 | 104 | 0.00560131 |
| 6 | g3047.t1 | Coils | Coil | Coil | 21 | 41 | - |
| 5 | g3047.t1 | Coils | Coil | Coil | 56 | 121 | - |
| 4 | g3047.t1 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 129 | 205 | 1.8E-23 |
| 2 | g3047.t1 | PANTHER | PTHR45956 | RUN AND FYVE DOMAIN-CONTAINING PROTEIN 2-LIKE PROTEIN | 9 | 203 | 2.9E-42 |
| 1 | g3047.t1 | Pfam | PF01363 | FYVE zinc finger | 138 | 202 | 4.8E-21 |
| 9 | g3047.t1 | ProSiteProfiles | PS50178 | Zinc finger FYVE/FYVE-related type profile. | 142 | 204 | 12.893 |
| 8 | g3047.t1 | SMART | SM00064 | fyve_4 | 134 | 205 | 1.2E-21 |
| 3 | g3047.t1 | SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 138 | 203 | 3.12E-20 |
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:0046872 | metal ion binding | 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.
