DreINT0068485 @ danRer10
Intron Retention
Gene
ENSDARG00000051768 | fhod1
Description
formin homology 2 domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-110623-4]
Coordinates
chr7:34333736-34334288:+
Coord C1 exon
chr7:34333736-34333891
Coord A exon
chr7:34333892-34334105
Coord C2 exon
chr7:34334106-34334288
Length
214 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
GCTTCCTTCTGTATCTGTAGAAA
3' ss Score
8.41
Exon sequences
Seq C1 exon
AAAGGTGCTGAGGTGAAGAAAGCAGCAATTTCAGTGCTTGATCCTAAGAGAAGCAATGCCATCAACATCGGCATGACTGTATTACCTGCTATACATGTGATCAAAAGTGCCATCCTCACCTTTGACGAGTTTGCCATCAGTAAAGAAGGCATCGAG
Seq A exon
GTAATGTAGCACTTTTACCCACAGGGGGCAGTAGTGGCTCACTTAATATTTGTTTTTGCATTCTGTACATTACATTTCTCTATTGTCAATAAATAATTTCTTTTTGGCCTTAAAATTCACACAAATATATATGTACATTTTTAATTGACATGTTTTTGTGATTAATTTAGGAAATCTAATATGGAATGGTTTTTGCTTCCTTCTGTATCTGTAG
Seq C2 exon
AAAATCCTAACCATGACACCAACAGAGGAAGAGAAACAGAAGATTCAGGAGGCTCAGCTGGCCAATCCGGATGTACCGCTGGGCACTGCAGAGCAGTTCCTGCTCACACTCTCCTCTATCAGCGGCCTAACAGCCAGATTACAGCTCTGGGCCTTTAAACTCAACTATGAGACCCTTGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000051768:ENSDART00000073447:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.131
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(13.8=100)
A:
NA
C2:
PF0218118=FH2=FE(16.3=100)
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:
GCTGAGGTGAAGAAAGCAGCA
R:
AAGGCCCAGAGCTGTAATCTG
Band lengths:
305-519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]