DreINT0069043 @ danRer10
Intron Retention
Gene
ENSDARG00000055713 | fmnl1a
Description
formin-like 1a [Source:ZFIN;Acc:ZDB-GENE-120215-83]
Coordinates
chr3:37076101-37077665:+
Coord C1 exon
chr3:37076101-37076202
Coord A exon
chr3:37076203-37077394
Coord C2 exon
chr3:37077395-37077665
Length
1192 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAT
5' ss Score
7.87
3' ss Seq
GTATATCTTGTTTGTAACAGGAG
3' ss Score
7.2
Exon sequences
Seq C1 exon
CTGACCGCCAGACTGCAGGAATGTGAGAATGGAGCACTGGACAAAATAGCAGAACTAGAGCAACAGCTATTGCAGGCAACTAAAGAATCAGCATTGCTGAAG
Seq A exon
GTACATTACTTTTGAAATGTGCACACTATCCATATTCCAAAATATCATTCAAGATTAGAAGTATTTAATAAAACATAGTTAGGGCCCAGATATCACTGTTTTCAATGGATATGTGTAGTATGGATCTGCGCATGTGTTTTTGTCTACACATATTATATTATATATATAATGCTGTCTGTGATTTCCTATTATGTGGCAAATAGTTCAGCAATATCTGTCCAATGCAGTATCAAAACACAGCAGTTGTAAAAACTTCCACACTTTTATTCATGTTATTAACAAACCATTAACTTAGACTTTTAGATCATTAACTACTAATTAGCTGCTTCTTAATAGTAAGGTAGTTGTTGGGTTGAGATATTGGGTAGGATTAGGGATTTAAAATAAGAAGATCATACTTCAAGAGTGCTAAAAAACAGGTAATATCTTTATAATTTGGCAGGTGATAAGACAGTAGTAAATGATGTGAATTGTTATTTGAGATATAGTGTTACCTATTTGGTCACATGTTACTTTAAAGTGCCCTTGTTTCAGTGTATTCATTTCACTACTGAGTAACAGTTATTTACATCTACTTACTATTGACCTTATTCTTCAATGCTGAAGTGCGCTCGTTTTTGCAACTGTTTTAGAACTTCCGATTCAGTCGCCAATGGGAGAAATGACTAGGAATAATTAACGTCAGAGAACGGTCAAACTACTTGCTGTACAAACAAGTGTTTGCATGACTATAAAGACCAAGTAGGATAAAATAATAATAAAATATCAGTTTGCAACATCAAGCAGCATTAGCATAGCGACCTGGTTTTAACATGTAAAAATTAATGGAAGTGAAGGAGACTAAAATCTCGAGCCAAAAAGATTCAAATGTCTGTGTCTGCTAGTACCTGAAGAATAAGGTGAATACAGTTAAAGTTAGAATGCAGAGCATTTCCTGCTTTGTTATCAAACTATTTCCTAACTGTAACAAGATGTGATTCATTGTTAAAACAGCTATCATAACATTATTTATCAAAAATGTGGACCTTTTTGGATTCTCAGAAGCTATATGGAAATGAAAAATGTAAAAGAGGAAACACTTTAGGAGGACCATTGTTATTGTTTACATCCCTCAAAATGGTCTGCACTATTTGAAATATCAAAAATGGCAATTAATCAATCAGTGTCTGACTGTATATCTTGTTTGTAACAG
Seq C2 exon
GAGAGCTTGCGGGAGTCCTGCACTCAGGTGAGCACGCTACAGCAGAGAGAACGAGAGCGAGAGATCCAGAGAGAAAGAGAACGAGAGCAGGAGCGTCAGTCACAGCCCTCACAGGTGGACAGAGAGAAGGGGAGTGAAAAAGAGTCCAAACTGGAGAAAAAACTCAAAGAACTGCAGGAGAAAGGCTTACTTCGACTGGAGCGCACAGTCTCTGGAAGCCTGGACATTGACGTCATTCCAGTCACCTTAGAGAAGATTGTAACTCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055713:ENSDART00000151144:13
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=0.912
Domain overlap (PFAM):
C1:
PF0636711=Drf_FH3=FE(16.8=100)
A:
NA
C2:
PF0636711=Drf_FH3=PD(17.3=37.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGACTGCAGGAATGTGAG
R:
AGGTGACTGGAATGACGTCAA
Band lengths:
343-1535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]