DreINT0069068 @ danRer10
Intron Retention
Gene
ENSDARG00000012586 | fmnl2a
Description
formin-like 2a [Source:ZFIN;Acc:ZDB-GENE-081105-70]
Coordinates
chr9:4798939-4801188:-
Coord C1 exon
chr9:4801087-4801188
Coord A exon
chr9:4799279-4801086
Coord C2 exon
chr9:4798939-4799278
Length
1808 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAAA
5' ss Score
5.16
3' ss Seq
CTTGTGCTTCCTTTTTTCAGGAC
3' ss Score
12.1
Exon sequences
Seq C1 exon
CTGACAGAGAAGTTACAGGACACCGAGAATGAGGCAATGGCAAAAATTGTTGAGCTGGAGAAACAACTCATGCAAAGAAATAAAGAGCTGGACTCTCTTCGG
Seq A exon
GTAAAAGATGCATCCTTACATCCATTACTGTCGTTAAGTTGACTATATTGGTGTTTTTCTTTAGGTATACAATAATGTAATTAAGACACAATACCATGATACCATACCCTCACCAGGGTGCTCGAGAGTTCATGAGAGTATGCCCAACCAGTGTTTTGTTGACTTGGAGAAGGCATTCGATCGTGTCCCTCTTGGCATTCTTTGGAGGGTGCTCTGGGAGGATGGGGTCAGAGGCGCTCTGCTAAGGGCTGTCTTGTCCCTGTATGAACAGAGTAGGAGTGTGGTTCGCATTGCCGGCAATAAGTCAGACTCGTTTCCAGTGCATGTTGGGCTCCAGCAGGGCTGCCCACTTGTCACCAATTCTATTCATAATTATTACGGACAGAATTTCAAAGTGCAGTCTTGGGCTAGAGGGGGTCCGGTTCGGGGACAACAGGCTTTCATCTCTGTTATTTGCAGATGATGTTCTTCTGTTGGCTTTATCAAGCATGGACCTTCAGCATGCACTGGGACGGTTTGCTGCTGAGTGTGACGCGGCTGGGATGAGAATCAGCACCTCCAAGTCCGATGTCATGGTGCTCCACGGAAAAAGGTGGTTTGCCATCTTCAGGTTGGAGGAAAGTCCTTACCCCAGGTGGAGGAGTTTAAGTATCTTGGGGTTTTGTTCACGAGTAAGGGAAAGATGGAACTAGAGATTGACAGGCAGATTGGTGCAGCTGCAGCAGTAATGCGGTCGATGTACCGGTCTGTTGTGGTAAAGAAGGAGCTGAACCGACAGGCAAAGCTCTCGATTTACTCGTCAATTTACGTTCCTACTCTCATGAGCTTTGGGTCATGACTAAAAGGACAAGATCTTGGATACAAGCGGCCAAAAGGAGTTTCCTTCACAGGGTGGCAGGGCACACTCTTATAGACAGGGAGGAGATCTGTCACCCAGGAGGAGTTAGAGTAGAGCCACTCCTCCTTCACATCAAGAGAAGTCAGCTGAGGTGGCTTGGGCATCTGTTTCGGATGCCTCCTGGGCGCCTACCTAGGGCGGTGTTGCAGGCATGTCTCACCAGCAGGAGGCCTCGGGGAAGACCCAGGACACACTGGAGGGACTATGTCTCTCGGCTGGCCTGGGAACGCCTCGTGATCGCCCTGGAGGAGCTGGAGGAAGTTTCTGGGGAGAGGGAAGTCTGGGGTTCTCTCGTAAGACTGCTGCTCCTGCGACCTGGCCCTTGATAAATGAATGAAAATGTCATGACATAACCATGATACTAGTAAATATCATACAAATTTAAGTATTGGTACCATTTAAGTTCCTATTTACTACCTATAACTATGCCTACTGTATATTTTTACCTATATACTAGGCATGTATAATTACGACAACTGGGTAATAATCAGATGCTAATGCTTAACCAAAACTGTTACAATAATTTATTTGACTTGTTCCTTTCGTCTGTAGGTACATTGTAGGTACAATTACTGTCATTTAAAGTAAAACTTTTTTCCTTTTCCTCTTTCTTTCTGTCTTCCTGTACTCAACTTGATCGTTGCAATTTAAAATAAGACAATGAACTTTCATATTTTAATTAGATTATATTACATTTAGTCATTTATCAGGGATTAGAACAAGAACAGAAGCAATCAAACCAACCAATACTCTTAGCATTAGCATTAGAAGGTCAGAGCAGATCGGCTGATGAACTAGTGCTAGTGCAGTGGAAAAGTCAAAGACGTTTGCTGAATTTACAGTTCATACAGCCAGTTTGGTCAATTTAATAACTTTGATTCCTGCTTCAGCTTGTGCTTCCTTTTTTCAG
Seq C2 exon
GACGTGTATAAAGATGCCAACTCTCAGGTGCACACTCTCCGGCGGATGGTGAAGGAGAAGGACGAGGCCATTCAGAGGCAGTGCAACCTGGAGAAGAAGATCCATGAGCTGGAGAAACAAGGGACCATTAAGATCCAGAAGAAAGGAGATGGTGACATAGCCATCCTGACATCTCCTCCACAGGGGAACGGGCATCTTACTGGTTCAGAAAGCATCACTGGGGTGCCTAGCGGTGGTGTGGTCAGTCACGGAGGTGTGGCTAATGGCGTAGCACATGGCGTGCACATTCCTGACCCTTCACTACCCCTTCCTCCTCCTTCTTCTTCTGTTTCAGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012586:ENSDART00000016814:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.246 A=NA C2=0.921
Domain overlap (PFAM):
C1:
PF0636711=Drf_FH3=FE(20.1=100),PF138701=DUF4201=FE(31.1=100),PF051307=FlgN=FE(41.8=100)
A:
NA
C2:
PF0636711=Drf_FH3=PD(21.0=37.7),PF061486=COG2=PD(24.0=40.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAGAATGAGGCAATGGCAA
R:
CATTAGCCACACCTCCGTGAC
Band lengths:
345-2153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]