DreINT0068491 @ danRer10
Intron Retention
Gene
ENSDARG00000051768 | fhod1
Description
formin homology 2 domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-110623-4]
Coordinates
chr7:34338845-34340865:+
Coord C1 exon
chr7:34338845-34339037
Coord A exon
chr7:34339038-34340696
Coord C2 exon
chr7:34340697-34340865
Length
1659 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGC
5' ss Score
5.35
3' ss Seq
AACTATTTTTTCCCCCACAGACA
3' ss Score
10.7
Exon sequences
Seq C1 exon
GTTTCATTCTTTCCTGTTGTACTTGGGTCATCCTTCATACTCGGTGCGGGACACTAAAGTGACTCATTTCTGTAAGATCATCAGTGAGTTTGCCCTGGAGTATCGCACCACTCGTGAGAGAGTCCTCACTCAGAAACGCAAGCGTGCCGTCCACCGAGAGCGCACCAAAACCCGGGGCAAGCTAATCACTGAG
Seq A exon
GTGTGCAATCAAAGCTCCTCAGAATATTTTCATGAATTGAAAGCAGTGCGTTACACTGAATTGTTCTTTGGTTTATTCCATTAGTCTAATTCCATCAGGTTTACACATACCCTGCAAAATCTACAAAACGGTAATCATGTTAACAAAACGAGGATCATAAAAGTTTCATTTTTTAAATTTATTTAGTTCATCCTTAAATTGTTTTATCCTTGAATACATTTTTACGTAAAAGATGTTAATATAAAGTACGCAAGACTAAATAATTGCTCGATCTTTAGTTAGATAGTTTAAAGGTTGTTGTTGTTTTAAAGCTGTATATCTTTTTCAGATCACACATTTTGGAAATGTACTATTTACTCTATTAATTTCAGTAAATAATAATGACCAGCAGGTTTATAAAAAGACAGAAAAGTATCAAAGAATGACCCTATATAACATATGCCATGTTCATATATTCAGGTTTGGTGTACAATAGTGATTTGGTGAAAACAAACCCAAATTTGATTTAGTATTTGTTTAATTAATGTTCTGACTGTGGTCATTAGTCTTTTGCACAACTGTGCATTTATGAAGTATGCAGTCCACTCCAATTTACCCAGAAGTAGCACACACAAGTTTCAAGAAATCTAAATGTATAGAAAAATGTAACTCAAAACACAATCCTCATTTTAATGAGTTTAGTATTTTAACTTGTTTTGTTTGTTTTACAGTGAGCTCAAAATTGTTATCCACAATTTTCACATATTAAATAAATGCCCTCACGCTGAGTTAATTAAGTTTACACACTGGATCAGAAAGATTAATCTGTTAATAAAAATAAAAAATAAAAAATCATTAATTGGCTCTTTGGATCATCCCACAGATTCTTAATAAGATTGTCATCTCTCCTTCCTCTCTTCATAATATGGGTATTAAATGGCCTTACATGTTTTCTTTTACAAAACCTTTGTAGTGAGTGTGCTAGGACCCTCATTCCGACAGCCCAAGCTCCAGTCTGGAGATGCTCAGCACTAAAGCTACACTGATGCTTTTTTTATGCCATTTTATGGATTAGGGTTTCATGTATTTTTAATGCTGGCTCATAAAAACAGTGCACTTGTATGCTTTTCTGGGCAAGCCAGAGTGAACACTGCTGCTAATAGTGGTTTATAAACGCATATTCCTGCAAGACAAAAGGGTCAAGGTCAGGATTTTTGTTAAATATTTTACATTTAGATAGTTTTTTTATTACAGTGTGTTTGTACAACTGAAATATAGGGTGTAATAAGGTTTTTGCCTCTACTGTATTTTAAATAATTTGAAACTTTTATTTTTAGTGATACAGTAGTAATTCATCAGTCCTTTCTTAGTCTTAAGCAGTTAAACTTTCCTCTGTTCAAAGTCTTAAAGACCCAGAACAAATGGTGGTCCATGTTTAAACACTCTGCAATACTTAGCAACTGGGTCAGTTTTCTCCATTGTCCCTCTTCGTTTTTATTGACATTATACCACACATGTTGTCAATACAGTGTAACTGATATTGAATCCATGGTGTTTGTTTTACCATTACATGGCCCTCTCCTCAACCCCACTGTATCACATACAAGCACCAATTGAGTGGATTCAGACTCATCATTACTAACTAATCACATAACTAATCAACTATTTTTTCCCCCACAG
Seq C2 exon
ACAGAAAAGTTTTCTGGAGCAGTTACAGAGCTGTCTCTGGATAGCAGCCCATCCCCAGTGTTTTCAGCAGTAGAATCAGAGCCAGCCCAGGAAGAGCATGAAAACATGAAAAACCTGCTCATCGCCAACAACGACAACAAGCTGCTGCGCCGGAGCCGTGCTGTACGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000051768:ENSDART00000073447:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.329 A=NA C2=0.554
Domain overlap (PFAM):
C1:
PF0218118=FH2=PD(9.5=53.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCATTCTTTCCTGTTGTACTTGG
R:
CGCAGCAGCTTGTTGTCGTT
Band lengths:
342-2001
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]