Gene loci information

Transcript annotation

  • This transcript has been annotated as Zinc finger FYVE domain-containing protein 1.

Parent gene

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.t8 isoform g7853.t8 26418541 26421463
chr_2 g7853 g7853.t8 exon g7853.t8.exon1 26418541 26419008
chr_2 g7853 g7853.t8 TTS g7853.t8 26418557 26418557
chr_2 g7853 g7853.t8 cds g7853.t8.CDS1 26418877 26419008
chr_2 g7853 g7853.t8 exon g7853.t8.exon2 26419073 26419365
chr_2 g7853 g7853.t8 cds g7853.t8.CDS2 26419073 26419365
chr_2 g7853 g7853.t8 TSS g7853.t8 26419301 26419301
chr_2 g7853 g7853.t8 exon g7853.t8.exon3 26419505 26419607
chr_2 g7853 g7853.t8 cds g7853.t8.CDS3 26419505 26419607
chr_2 g7853 g7853.t8 exon g7853.t8.exon4 26419674 26421463
chr_2 g7853 g7853.t8 cds g7853.t8.CDS4 26419674 26420912

Sequences

>g7853.t8 Gene=g7853 Length=2654
ATGGTAAGATTAAAGTATTTTCCTTTGTTTTGTTTGAACGGGTGTATAAAATTTAATATT
GACAAGCCTTCGAACGAGAAAAAAAATAAAAATTGATTATCAACAACATTGTCGCTTCTG
TGCTTGTTTATTTGCATTGTATCAACAAGCAATAGCAAATGATTTGACATATTTTCCGAG
TATAAAAATTTTTAAAAATTCACATGACCTTCGTATTTATTTTTTAGGACACAATTTCAT
CGCCTATCTATGTGTCGCGCGCGGAATCGAAGCCAGATTTGTTGAATGTCAGCAAGGAAA
TCGAGGATGCCCTGCACAGTATAAATCTCAATAGTCAAACATATGACACCAATGATCCGC
ACAGTAAATCCTTTGCCATTATAGACTCAAATGAAAATTTTCAAGTTAGCAGTTTGGAAA
ATTTTACAAAAAAACTTGGCATAGGCGATTGTGAAAAGAAGGTGAAGGTTGTGTCAATTT
TTGGGAACTCAGGTGATGGAAAATCGCACACACTCAATAATGTGTTCTTTGATGGCTATG
AAATATTCAAAATGAGTTCCGAGCAAAAGTCATGCACATTAGGTGTATGGCTTGCGTATC
AAGGATATTTTTATAACAGTCCAATTCTATGTGTCGATACAGAAGGACTTCAGGGAGTAG
CACAAAATGAAAATCAACAGCATCGAATGCTTATGAAGGTACTTGCCGTATCTGATATTA
TTATTTATCGAACACGAGCAGAACGACTAAACTCAGATATGTACAAATTTCTTGGAACAG
CATCGAAAATATATCAACGTCATCTTAGTCCACTTTTAAATGACAACGCATCAAATTTTA
CAACATACGGTCCATCAGTGATAATTTTTCATGAAGTTTCAAATACATGGCCATTAGAGA
CGAGCATAGTCGAGTCACCTGAAAATATAATCAAGGAAAAATTCTCTGAGATGAAATTAA
ATATTGACGCATTTAGTTCACTCAAATATGTCGGCATCAAAACAAGTTCTGCACCAACTG
ATTTTAATCCATTGAAAAGCATTTTGAAAAATGATATTGAAAATAAAGGAAAACATATGA
GAAGCATAAGAAGCATTTATGATCAGCTTGAGATGCTTAACAATAAATTTTCCGGTGATG
TCGAGTATAACATTGATAAAGAATATACTTTGCATGAATCACATTTTAAGTGCGAAGTGA
CATGTGAAGGATGCTTTCAGCGCTGTGAAAACACTCGTGATCATATTAAGGACGGTCAGG
AACATAGCAATTCCGCCGCATGCATCTATCAGCAACAGCTTAATAATAAGATTTATCTAT
GCAAGCGATGTCATCTAGAAAATCGCAGAAGTGTTGTAAAAATAAATAATGCGAATGGTG
ATTGGCTAACTAAATACACGTGGGGTATCGGAGCTAATTCAAAAATCGATTGTGTTCGTC
ATGGTGAGATTTATCGCAGTCGATGGTATGGTAACAAAAATCCTGAAGAAATTTGCGTTC
TTTCTGAGGCCGTTCACATTTGGCGTGACGGCTTATCAAGAAATCAAGTGCCAACACATT
CTGCACAAGCCATTGTTGATGGATTTTCATACATTTCCGATGCTATTTCATCAGTTTCTG
CACAACCAACAAAGACTGTGACGTCATGGGTAGCAGATAATTTAGTTAATCCTACATATT
GGGTTCCAAATTCTGAAATTATCCATTGTGAGCTATGTAAGACGAATTTCGAATCGAGTG
GATTAAAAATTCATCATTGTCGCAATTGTGGAAAAGGTGTATGCAATGATTGTTCAAAGA
ACAGAATGAAAGTTCCACTTAAACTTGGATGGGGATATGATCTCGTAAGAGTATGCAATC
GATGCAGAGATGAATTAATGAAAAATGAAAATGAACGTTTCGATGAAAAAACAAAGAATG
TGAAAGTGCGAAAATATGGTGAAGTGATTTTTAATGCAGTTAGCACTGTTGCAGCGGCTT
TAGAATATCCTAAAGAACTAATTAAAGACAGTGTACGACCTGAATACTGGGCTCGTGATA
GCGAGTCACCATCATGTTCATTGTGTGATCAAGTATTTGGTAATCTTGACGATATGGAGC
AATCTAAAATTCGTGAATTGAGTAGCGCTTCAGGAAATTCATTGGGAAATTCACCAAATC
ATGTTATTGATATTCGACGACATCACTGTCGTGGATGTGGTGCAGCTGTGTGTAATAAAT
GTTCTACAAATCGAAGACCTGTTCCTGAAAGAGGATGGAACAATGAAGTTCGAGTTTGTG
ATAACTGCTGGAAGAAACCAAATGCAAAGGACTCATAAAAAAGGCATCCATAATCATATT
CATAATTGAATTTCTACTGCGCTTTTCAACAATGTATTCCATATTATAGATGAAAAAAAT
AGGTAGCAAAGATTTAATTTTAAACTATTATAGTCATTATCCTTCTTCGCAGTTCTTTAC
TTTCAAGCAGAAAAAAAATCAGATACTTAGAATAATTTTTTTACAATCATCTAGATCTTT
TCTTGTTGTGTTATAATGGAAAAATATTTATAGAAAAATGAAAATATTTTATTGTATTGA
GATGAAATTATTACAATACAAAAATAGATCCATATTTTAAAATTCTTCAGTTTGCTCTAA
AACAAATTATTTTT

>g7853.t8 Gene=g7853 Length=588
MSSEQKSCTLGVWLAYQGYFYNSPILCVDTEGLQGVAQNENQQHRMLMKVLAVSDIIIYR
TRAERLNSDMYKFLGTASKIYQRHLSPLLNDNASNFTTYGPSVIIFHEVSNTWPLETSIV
ESPENIIKEKFSEMKLNIDAFSSLKYVGIKTSSAPTDFNPLKSILKNDIENKGKHMRSIR
SIYDQLEMLNNKFSGDVEYNIDKEYTLHESHFKCEVTCEGCFQRCENTRDHIKDGQEHSN
SAACIYQQQLNNKIYLCKRCHLENRRSVVKINNANGDWLTKYTWGIGANSKIDCVRHGEI
YRSRWYGNKNPEEICVLSEAVHIWRDGLSRNQVPTHSAQAIVDGFSYISDAISSVSAQPT
KTVTSWVADNLVNPTYWVPNSEIIHCELCKTNFESSGLKIHHCRNCGKGVCNDCSKNRMK
VPLKLGWGYDLVRVCNRCRDELMKNENERFDEKTKNVKVRKYGEVIFNAVSTVAAALEYP
KELIKDSVRPEYWARDSESPSCSLCDQVFGNLDDMEQSKIRELSSASGNSLGNSPNHVID
IRRHHCRGCGAAVCNKCSTNRRPVPERGWNNEVRVCDNCWKKPNAKDS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g7853.t8 Gene3D G3DSA:3.40.50.300 - 1 144 0.0000000
11 g7853.t8 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 367 450 0.0000000
12 g7853.t8 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 491 584 0.0000000
3 g7853.t8 PANTHER PTHR46624:SF1 AGAP002036-PA 2 582 0.0000000
4 g7853.t8 PANTHER PTHR46624 AGAP002036-PA 2 582 0.0000000
1 g7853.t8 Pfam PF01363 FYVE zinc finger 376 443 0.0000000
2 g7853.t8 Pfam PF01363 FYVE zinc finger 492 582 0.0000000
14 g7853.t8 ProSiteProfiles PS50178 Zinc finger FYVE/FYVE-related type profile. 380 443 11.2830000
13 g7853.t8 ProSiteProfiles PS50178 Zinc finger FYVE/FYVE-related type profile. 496 584 11.9220000
8 g7853.t8 SMART SM00064 fyve_4 372 444 0.0000000
9 g7853.t8 SMART SM00064 fyve_4 488 585 0.0000000
5 g7853.t8 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 2 85 0.0000903
6 g7853.t8 SUPERFAMILY SSF57903 FYVE/PHD zinc finger 376 448 0.0000000
7 g7853.t8 SUPERFAMILY SSF57903 FYVE/PHD zinc finger 491 582 0.0000000

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.

Raw TPM values