General information for g7853.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Zinc finger FYVE domain-containing protein 1.
Parent gene
- The parent gene g7853 is located on chr_2: 26420665..26421463 (- 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 | g7853 | g7853.t4 | isoform | g7853.t4 | 26418541 | 26419602 |
| chr_2 | g7853 | g7853.t4 | exon | g7853.t4.exon1 | 26418541 | 26419008 |
| chr_2 | g7853 | g7853.t4 | TTS | g7853.t4 | 26418557 | 26418557 |
| chr_2 | g7853 | g7853.t4 | cds | g7853.t4.CDS1 | 26418877 | 26419008 |
| chr_2 | g7853 | g7853.t4 | exon | g7853.t4.exon2 | 26419073 | 26419365 |
| chr_2 | g7853 | g7853.t4 | cds | g7853.t4.CDS2 | 26419073 | 26419365 |
| chr_2 | g7853 | g7853.t4 | exon | g7853.t4.exon3 | 26419487 | 26419602 |
| chr_2 | g7853 | g7853.t4 | cds | g7853.t4.CDS3 | 26419487 | 26419592 |
| chr_2 | g7853 | g7853.t4 | TSS | g7853.t4 | 26420489 | 26420489 |
Sequences
>g7853.t4 Gene=g7853 Length=877
AAAGAACAGAATGAAAGTTCCACTTAAACTTGGATGGGGATATGATCTCGTAAGAGTATG
CAATCGATGCAGAGATGAATTAATGAAAAATGAAAATGGTAATAATAATGATGCAGAACG
TTTCGATGAAAAAACAAAGAATGTGAAAGTGCGAAAATATGGTGAAGTGATTTTTAATGC
AGTTAGCACTGTTGCAGCGGCTTTAGAATATCCTAAAGAACTAATTAAAGACAGTGTACG
ACCTGAATACTGGGCTCGTGATAGCGAGTCACCATCATGTTCATTGTGTGATCAAGTATT
TGGTAATCTTGACGATATGGAGCAATCTAAAATTCGTGAATTGAGTAGCGCTTCAGGAAA
TTCATTGGGAAATTCACCAAATCATGTTATTGATATTCGACGACATCACTGTCGTGGATG
TGGTGCAGCTGTGTGTAATAAATGTTCTACAAATCGAAGACCTGTTCCTGAAAGAGGATG
GAACAATGAAGTTCGAGTTTGTGATAACTGCTGGAAGAAACCAAATGCAAAGGACTCATA
AAAAAGGCATCCATAATCATATTCATAATTGAATTTCTACTGCGCTTTTCAACAATGTAT
TCCATATTATAGATGAAAAAAATAGGTAGCAAAGATTTAATTTTAAACTATTATAGTCAT
TATCCTTCTTCGCAGTTCTTTACTTTCAAGCAGAAAAAAAATCAGATACTTAGAATAATT
TTTTTACAATCATCTAGATCTTTTCTTGTTGTGTTATAATGGAAAAATATTTATAGAAAA
ATGAAAATATTTTATTGTATTGAGATGAAATTATTACAATACAAAAATAGATCCATATTT
TAAAATTCTTCAGTTTGCTCTAAAACAAATTATTTTT
>g7853.t4 Gene=g7853 Length=176
MKVPLKLGWGYDLVRVCNRCRDELMKNENGNNNDAERFDEKTKNVKVRKYGEVIFNAVST
VAAALEYPKELIKDSVRPEYWARDSESPSCSLCDQVFGNLDDMEQSKIRELSSASGNSLG
NSPNHVIDIRRHHCRGCGAAVCNKCSTNRRPVPERGWNNEVRVCDNCWKKPNAKDS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g7853.t4 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 78 | 172 | 0.000 |
| 2 | g7853.t4 | PANTHER | PTHR46624:SF1 | AGAP002036-PA | 6 | 170 | 0.000 |
| 3 | g7853.t4 | PANTHER | PTHR46624 | AGAP002036-PA | 6 | 170 | 0.000 |
| 1 | g7853.t4 | Pfam | PF01363 | FYVE zinc finger | 80 | 170 | 0.000 |
| 7 | g7853.t4 | ProSiteProfiles | PS50178 | Zinc finger FYVE/FYVE-related type profile. | 84 | 172 | 11.922 |
| 5 | g7853.t4 | SMART | SM00064 | fyve_4 | 76 | 173 | 0.000 |
| 4 | g7853.t4 | SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 79 | 170 | 0.000 |
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.
