General information for g7853.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | TTS | g7853.t1 | 26418557 | 26418557 |
| chr_2 | g7853 | g7853.t1 | isoform | g7853.t1 | 26418877 | 26421463 |
| chr_2 | g7853 | g7853.t1 | exon | g7853.t1.exon1 | 26418877 | 26419008 |
| chr_2 | g7853 | g7853.t1 | cds | g7853.t1.CDS1 | 26418877 | 26419008 |
| chr_2 | g7853 | g7853.t1 | exon | g7853.t1.exon2 | 26419073 | 26419365 |
| chr_2 | g7853 | g7853.t1 | cds | g7853.t1.CDS2 | 26419073 | 26419365 |
| chr_2 | g7853 | g7853.t1 | exon | g7853.t1.exon3 | 26419487 | 26419607 |
| chr_2 | g7853 | g7853.t1 | cds | g7853.t1.CDS3 | 26419487 | 26419607 |
| chr_2 | g7853 | g7853.t1 | exon | g7853.t1.exon4 | 26419674 | 26421236 |
| chr_2 | g7853 | g7853.t1 | cds | g7853.t1.CDS4 | 26419674 | 26421236 |
| chr_2 | g7853 | g7853.t1 | exon | g7853.t1.exon5 | 26421461 | 26421463 |
| chr_2 | g7853 | g7853.t1 | cds | g7853.t1.CDS5 | 26421461 | 26421463 |
| chr_2 | g7853 | g7853.t1 | TSS | g7853.t1 | 26421541 | 26421541 |
Sequences
>g7853.t1 Gene=g7853 Length=2112
ATGGACACAATTTCATCGCCTATCTATGTGTCGCGCGCGGAATCGAAGCCAGATTTGTTG
AATGTCAGCAAGGAAATCGAGGATGCCCTGCACAGTATAAATCTCAATAGTCAAACATAT
GACACCAATGATCCGCACAGTAAATCCTTTGCCATTATAGACTCAAATGAAAATTTTCAA
GTTAGCAGTTTGGAAAATTTTACAAAAAAACTTGGCATAGGCGATTGTGAAAAGAAGGTG
AAGGTTGTGTCAATTTTTGGGAACTCAGGTGATGGAAAATCGCACACACTCAATAATGTG
TTCTTTGATGGCTATGAAATATTCAAAATGAGTTCCGAGCAAAAGTCATGCACATTAGGT
GTATGGCTTGCGTATCAAGGATATTTTTATAACAGTCCAATTCTATGTGTCGATACAGAA
GGACTTCAGGGAGTAGCACAAAATGAAAATCAACAGCATCGAATGCTTATGAAGGTACTT
GCCGTATCTGATATTATTATTTATCGAACACGAGCAGAACGACTAAACTCAGATATGTAC
AAATTTCTTGGAACAGCATCGAAAATATATCAACGTCATCTTAGTCCACTTTTAAATGAC
AACGCATCAAATTTTACAACATACGGTCCATCAGTGATAATTTTTCATGAAGTTTCAAAT
ACATGGCCATTAGAGACGAGCATAGTCGAGTCACCTGAAAATATAATCAAGGAAAAATTC
TCTGAGATGAAATTAAATATTGACGCATTTAGTTCACTCAAATATGTCGGCATCAAAACA
AGTTCTGCACCAACTGATTTTAATCCATTGAAAAGCATTTTGAAAAATGATATTGAAAAT
AAAGGAAAACATATGAGAAGCATAAGAAGCATTTATGATCAGCTTGAGATGCTTAACAAT
AAATTTTCCGGTGATGTCGAGTATAACATTGATAAAGAATATACTTTGCATGAATCACAT
TTTAAGTGCGAAGTGACATGTGAAGGATGCTTTCAGCGCTGTGAAAACACTCGTGATCAT
ATTAAGGACGGTCAGGAACATAGCAATTCCGCCGCATGCATCTATCAGCAACAGCTTAAT
AATAAGATTTATCTATGCAAGCGATGTCATCTAGAAAATCGCAGAAGTGTTGTAAAAATA
AATAATGCGAATGGTGATTGGCTAACTAAATACACGTGGGGTATCGGAGCTAATTCAAAA
ATCGATTGTGTTCGTCATGGTGAGATTTATCGCAGTCGATGGTATGGTAACAAAAATCCT
GAAGAAATTTGCGTTCTTTCTGAGGCCGTTCACATTTGGCGTGACGGCTTATCAAGAAAT
CAAGTGCCAACACATTCTGCACAAGCCATTGTTGATGGATTTTCATACATTTCCGATGCT
ATTTCATCAGTTTCTGCACAACCAACAAAGACTGTGACGTCATGGGTAGCAGATAATTTA
GTTAATCCTACATATTGGGTTCCAAATTCTGAAATTATCCATTGTGAGCTATGTAAGACG
AATTTCGAATCGAGTGGATTAAAAATTCATCATTGTCGCAATTGTGGAAAAGGTGTATGC
AATGATTGTTCAAAGAACAGAATGAAAGTTCCACTTAAACTTGGATGGGGATATGATCTC
GTAAGAGTATGCAATCGATGCAGAGATGAATTAATGAAAAATGAAAATGGTAATAATAAT
GATGCAGAACGTTTCGATGAAAAAACAAAGAATGTGAAAGTGCGAAAATATGGTGAAGTG
ATTTTTAATGCAGTTAGCACTGTTGCAGCGGCTTTAGAATATCCTAAAGAACTAATTAAA
GACAGTGTACGACCTGAATACTGGGCTCGTGATAGCGAGTCACCATCATGTTCATTGTGT
GATCAAGTATTTGGTAATCTTGACGATATGGAGCAATCTAAAATTCGTGAATTGAGTAGC
GCTTCAGGAAATTCATTGGGAAATTCACCAAATCATGTTATTGATATTCGACGACATCAC
TGTCGTGGATGTGGTGCAGCTGTGTGTAATAAATGTTCTACAAATCGAAGACCTGTTCCT
GAAAGAGGATGGAACAATGAAGTTCGAGTTTGTGATAACTGCTGGAAGAAACCAAATGCA
AAGGACTCATAA
>g7853.t1 Gene=g7853 Length=703
MDTISSPIYVSRAESKPDLLNVSKEIEDALHSINLNSQTYDTNDPHSKSFAIIDSNENFQ
VSSLENFTKKLGIGDCEKKVKVVSIFGNSGDGKSHTLNNVFFDGYEIFKMSSEQKSCTLG
VWLAYQGYFYNSPILCVDTEGLQGVAQNENQQHRMLMKVLAVSDIIIYRTRAERLNSDMY
KFLGTASKIYQRHLSPLLNDNASNFTTYGPSVIIFHEVSNTWPLETSIVESPENIIKEKF
SEMKLNIDAFSSLKYVGIKTSSAPTDFNPLKSILKNDIENKGKHMRSIRSIYDQLEMLNN
KFSGDVEYNIDKEYTLHESHFKCEVTCEGCFQRCENTRDHIKDGQEHSNSAACIYQQQLN
NKIYLCKRCHLENRRSVVKINNANGDWLTKYTWGIGANSKIDCVRHGEIYRSRWYGNKNP
EEICVLSEAVHIWRDGLSRNQVPTHSAQAIVDGFSYISDAISSVSAQPTKTVTSWVADNL
VNPTYWVPNSEIIHCELCKTNFESSGLKIHHCRNCGKGVCNDCSKNRMKVPLKLGWGYDL
VRVCNRCRDELMKNENGNNNDAERFDEKTKNVKVRKYGEVIFNAVSTVAAALEYPKELIK
DSVRPEYWARDSESPSCSLCDQVFGNLDDMEQSKIRELSSASGNSLGNSPNHVIDIRRHH
CRGCGAAVCNKCSTNRRPVPERGWNNEVRVCDNCWKKPNAKDS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g7853.t1 | Gene3D | G3DSA:3.40.50.300 | - | 45 | 248 | 0.000 |
| 12 | g7853.t1 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 475 | 557 | 0.000 |
| 11 | g7853.t1 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 606 | 699 | 0.000 |
| 3 | g7853.t1 | PANTHER | PTHR46624:SF1 | AGAP002036-PA | 44 | 697 | 0.000 |
| 4 | g7853.t1 | PANTHER | PTHR46624 | AGAP002036-PA | 44 | 697 | 0.000 |
| 2 | g7853.t1 | Pfam | PF01363 | FYVE zinc finger | 485 | 552 | 0.000 |
| 1 | g7853.t1 | Pfam | PF01363 | FYVE zinc finger | 607 | 697 | 0.000 |
| 13 | g7853.t1 | ProSiteProfiles | PS50178 | Zinc finger FYVE/FYVE-related type profile. | 489 | 552 | 11.283 |
| 14 | g7853.t1 | ProSiteProfiles | PS50178 | Zinc finger FYVE/FYVE-related type profile. | 611 | 699 | 11.922 |
| 9 | g7853.t1 | SMART | SM00064 | fyve_4 | 481 | 553 | 0.000 |
| 8 | g7853.t1 | SMART | SM00064 | fyve_4 | 603 | 700 | 0.000 |
| 5 | g7853.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 50 | 194 | 0.000 |
| 6 | g7853.t1 | SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 485 | 555 | 0.000 |
| 7 | g7853.t1 | SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 606 | 697 | 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 transcript has been annotated with K17603 (zinc finger FYVE domain-containing protein 1)
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.
