DreINT0069069 @ danRer10
Intron Retention
Gene
ENSDARG00000012586 | fmnl2a
Description
formin-like 2a [Source:ZFIN;Acc:ZDB-GENE-081105-70]
Coordinates
chr9:4797207-4799278:-
Coord C1 exon
chr9:4798939-4799278
Coord A exon
chr9:4797381-4798938
Coord C2 exon
chr9:4797207-4797380
Length
1558 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
GTCCTGTTTTATAATTACAGTAC
3' ss Score
5.49
Exon sequences
Seq C1 exon
GACGTGTATAAAGATGCCAACTCTCAGGTGCACACTCTCCGGCGGATGGTGAAGGAGAAGGACGAGGCCATTCAGAGGCAGTGCAACCTGGAGAAGAAGATCCATGAGCTGGAGAAACAAGGGACCATTAAGATCCAGAAGAAAGGAGATGGTGACATAGCCATCCTGACATCTCCTCCACAGGGGAACGGGCATCTTACTGGTTCAGAAAGCATCACTGGGGTGCCTAGCGGTGGTGTGGTCAGTCACGGAGGTGTGGCTAATGGCGTAGCACATGGCGTGCACATTCCTGACCCTTCACTACCCCTTCCTCCTCCTTCTTCTTCTGTTTCAGAAACAG
Seq A exon
GTAAGTGATTTTAAGTGAAGTCTATTTATAAACTTATTTCAAGAGGATCACGTGCATATGATTGCTTGCAGTCGGCCCCGCATTATTTCATTTATGATTGACCAATCAGACGATTCCTAAGCCACTAAATACCATAAGTTCCATATAACAGCATCTTCGTTTTGAAGAATCCTTCCTTCCACCCCTACTCCTTCTCCTTTCCTAGGTGGGAGGCACGGTGGCCCAGTGGTTAGCACTGTTGCCTCACAGCAAGAACGTCACTGGTTCTAGTCCTTACCAAGCCAGTCGACTTTTCTGTGTAGAGTTTAAACACATTCTCCCCGTGCTCACGTGGGTTTCCCCCGGGTTCCCCGGTTTCCTTCCACCTTCCAAAAACATACAACTTAAGTGAATTGACTAATCCAAATCAGCACCATAGACATGCTCCTAGTAAGTAGTTATCTCTTAAGAGCAATCATTATCTGTTCATTAGCTACTACAGGAGAGGAGTTCTCGAGATCTGCCTGAGCTCAAACTCCCCTCTCGCCTTGCAAACGGGAGGGAGCCCCAGGCTCAAGGATCTTATGTAGTCAAGACTCTCTCCCAGGACAGCATGCCAAACAAGCTTTATAATCAATCCTCAGCTCAGGGTGAATGGTCGTTCAGTGCAAAAGTATATTTAAGACCCTGGCAGCCAGTCAGGGTTTAGATCAGGGGTGTCCAAACTCAGTCCTGAAGTGCCAATGTCCTGCAGAGTTTAGCTCCAACTTGCATCACAGTATTGTAACAACAGTTATTATACATAGTGTTATATATAATATTTCTTATATTACCCATTAAATTGGAGTTTGGGCACCAGCACAAGTACAAAGCTCTATATTATAGCTTATTCTGGTCAAACCTCCTATTAAGAAATAAATTGTGAATGGTGGCCAAAGTTGTTACATCTCCTGGCAGATTTAAAATACTGGCCTTTTCTGTTAACGAAACGTGATTTCATTTCACGATGTTCATAAAACATCCTGATAATTGCTCTCAGCTCAATTTCAGATGGAGTAGGTCATACTGTTTTTACTGTAATATTTGGTATGTCAACATCTCTGACAGTGTCGGTGTATTTCCTGAGAACTTCAACATGAATGTTCTCCATGGGTCTGCAACTGAAGTCGAAGATTTCCTTTGAATTCTGTGAAGAAACATGACAATGAAATAAGCCTAAAATGATCAAATACTTGTGCTTCATTTTCTTTAAAGAAAGTGAACCTCTTCCTTCACAAAAAAAAAAAAAAACTGACACTTTAAGGACATTAAAGCTGTGAGAAGGGATAAATTGGTATTTATTATCATCACGAGCTCCTCTTTTCTACCGTTATACATGGGGAGAGGCTGTCGTAAATATTGAGTGGAACGTATCGTTGCATTTAAACTAAATTCAGTGGTGCAACAAATCACAACTAGGCCATGTTTTAACCTACGCACTGCTAGTGCAACTGGCTCCAGTGTCACAAATCAATCAATAAATAAATGAATTTAGTGTCATGAGATGAAATTAACATTCTGTCCTGTTTTATAATTACAG
Seq C2 exon
TACTAAATGGTCCGTCTGCAGCTCCGGCACCAGCTCCTCCACCTCCTCCTCCACCTCCCCCTCCTCCTCTTCCCGTAGATATATCTGCCCCTATGCCCCCTCCACCACCCCCCATGGCTCCTCCGCTTCCTGGCTGTGGTTCGCCCACCGTCATCATGAACTCGGGATTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012586:ENSDART00000016814:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.921 A=NA C2=0.857
Domain overlap (PFAM):
C1:
PF0636711=Drf_FH3=PD(21.0=37.7),PF061486=COG2=PD(24.0=40.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCATCCTGACATCTCCTCC
R:
CGAGTTCATGATGACGGTGGG
Band lengths:
346-1904
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]