DreINT0068486 @ danRer10
Intron Retention
Gene
ENSDARG00000051768 | fhod1
Description
formin homology 2 domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-110623-4]
Coordinates
chr7:34334106-34335822:+
Coord C1 exon
chr7:34334106-34334288
Coord A exon
chr7:34334289-34335702
Coord C2 exon
chr7:34335703-34335822
Length
1414 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
CTTACCCATGAATGTTGCAGGAG
3' ss Score
5.68
Exon sequences
Seq C1 exon
AAAATCCTAACCATGACACCAACAGAGGAAGAGAAACAGAAGATTCAGGAGGCTCAGCTGGCCAATCCGGATGTACCGCTGGGCACTGCAGAGCAGTTCCTGCTCACACTCTCCTCTATCAGCGGCCTAACAGCCAGATTACAGCTCTGGGCCTTTAAACTCAACTATGAGACCCTTGAGAAG
Seq A exon
GTCAGTGCACTGGAATAAGTCCTATTTTAATAATGAAAATTATAATAAAAACAGTTTTCTTCATTAGTATTGTCATCTTATTTATACAAGTTATGTTAGTAAGTTATGTTGCCCCATGTTAAGTTGACCATTTGGAATTTCATATACAATATTGTTAAGAAGTTTGGATATTTTTGGATTTCACTTTTTAAATACCTCAAGTTAGCTCCGTCTCACTGCAGTTTTTAATAATCTTACAAAATTGTAGCATGTCAGACTTCACAAACATAACTTTCATGTCACACTGTAAAATCTCAGTCAGACTGAATGACAATAAAGACGTGCCAAACGCAAGAATACGCGCAAGAAAACTCACTCAGAGTTTGATGTCCTCAATCTGTGACACCTTCACTATAATACCTCATGGCAAGTATAAACAAACTCTAGTGGTCATTTTTCTCATAGCATGTCTCAATATTAAACTAGAAAAAGACAGTTTTGACATTTCACACACTAGTTGAGCTGATTGCATTATCAGATTCTGCTCTCCTATTGGTTTGATGGGCGTCATGACTGAAGTTGAAGTCTTCTGACACTGCCAGAATTTCATCGGAGGGAAGATTTGATCACAATAGCCAGTGAGCGGCTGTCAGTGAACATGTCAAACCAACAATCAAAGATCACAGATTTGGCCTAGGATTTCAGCAATATTTTAGGATTTCACAAATTTGACTACCTAAATGTTTTAAAACAACCTAATCATTGCTGAAATCACATAGCGTGAGCAGGGCTTTAGGCAAAAGTTTGAGGAATCCAATATACAAAAAAAGTAGTATTTCATCTTAAGGTAAATTAAAATATTTCTGTTATATGAAAATGTTTTCATTTAAAGTAAAAGCTATCTTTTTAAATATATTTAAAAATTTATTCATTTCTGTAATGCTAACTTTTTTCAATGTTTTCAACATTTTTTCAATTAATCTGGTTGTACCCACTCTTAGATCTAACTAGTTCAGCTGCATTAGAAACGATTGTTCAGTGTTGATATACTTGAATTATGTTGATGTAAATGTCTATACACTTACTAATCATTTAATTAGATTACCTACAAAAAATCTATTTTAGTATGACTAATAAATATCTGTTGAACTGATATCTTGCTTTATATTACTTGTTGTGTCAGTGAGCTAGAGCAGTATGTCCATATTTAAATATCTTTCTGTCTATTTTCAGATTTACACACAGTTATATTGTGTTTTAGTATTGCATTCTGGCTAATCTGGCTGAACTGAAAAAGGAAAAATTGTATGCTTACACTCGGTTCTGTCAACCTTGATTGTTAATAACTTTAGTGTGCTTCCAGCAAGGTTTTAATGTTCTATTCTTTATCCATCTGTGTCTTCCTTCTCCTGTTCCTTACCCATGAATGTTGCAG
Seq C2 exon
GAGATTGCAGAGCCTCTTTTTGACCTGAAGCAGGGCATGGAACAACTCGCCAAGAACAAAACCTTCAAACGTATCCTAGCAACACTACTGGCCATTGGCAACTTCCTAAACAGCTCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000051768:ENSDART00000073447:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.131 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(16.3=100)
A:
NA
C2:
PF0218118=FH2=FE(10.6=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:
AAATCCTAACCATGACACCAACAGA
R:
CCTTGAGCTGTTTAGGAAGTTGC
Band lengths:
302-1716
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]