DreINT0069044 @ danRer10
Intron Retention
Gene
ENSDARG00000055713 | fmnl1a
Description
formin-like 1a [Source:ZFIN;Acc:ZDB-GENE-120215-83]
Coordinates
chr3:37077395-37078860:+
Coord C1 exon
chr3:37077395-37077665
Coord A exon
chr3:37077666-37078599
Coord C2 exon
chr3:37078600-37078860
Length
934 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CATCTATGCAATGTTTGCAGTGA
3' ss Score
5.07
Exon sequences
Seq C1 exon
GAGAGCTTGCGGGAGTCCTGCACTCAGGTGAGCACGCTACAGCAGAGAGAACGAGAGCGAGAGATCCAGAGAGAAAGAGAACGAGAGCAGGAGCGTCAGTCACAGCCCTCACAGGTGGACAGAGAGAAGGGGAGTGAAAAAGAGTCCAAACTGGAGAAAAAACTCAAAGAACTGCAGGAGAAAGGCTTACTTCGACTGGAGCGCACAGTCTCTGGAAGCCTGGACATTGACGTCATTCCAGTCACCTTAGAGAAGATTGTAACTCAGACAG
Seq A exon
GTAAGAGCAGAAGGAGGAGCAAGAGAAGTTTTCCTTCTGGTTGTCATCTAAAACGAATGCATGAAATGAAATGATTTTCTCTTTAAATTACACTTATTTATTTGATGCTTTTATACAAAATGACTCGCATAAAGAAACAAAACATTTTACATGTAGTATATACATACATACAGAGGTTTTTTTGTCAAGCCCACTCACCTGTTTGAAGTACACTTACAAAGCCAACATATGCTCAATCTAAAAACGTAGTCCTATATACGTTTCTGGAGTACGCAAATTATGTAGCCAGAAGTATGAATGGCTGCATTTCCTCTTTAAAGCGAACGATATGGGGTAGTATGATGCCATTCCTTTTCGTGCTTACCAGCTGACCGATTACCTTCATATGGACAGCTTTCCTGCTGTTACATTTGTCCAGTTAGCACGTGAACTTAAGATGCAGAGAGGAGGGCTTTTTCTTTTTCTGAATTGCTTTTTAAAACTATCACTTGGGTTTAGGGAAGTGGGTGGTGAGTCAATCAGTACATTTTAAAACACTAGTGGTTGGGTTTAGGAAAGGAAGAGGGTGGGTCAGTCGATTGGTCAGTCAGTCCGTCAAACAGTCAGTCGACAGAGGCCTCTGGTTGATTTACGCGAGAACTGCCGGCACGAAAGGCACTTGCAAGAGAAAATTGAGATCTCAAAAAGTATACACAGCTGCCTCCAGAGGATTCGCAAAAAACAAAAACTGCAAAAAGCATACGTCCTGGGATGTATTTGATGCACTTCAGAAATGTAGGTACGTTTTCAGAATGAGTTGCACAAAGCACAATGTGTTCCCAGAAACATGGAGTGTTTTTAAAAAAAGAGTCTTGTACATCTGGAGAGGAAAAGAGCATGCCTGCAAATGAATTAATCAACCAACAATAATTTAACATCTATGCAATGTTTGCAG
Seq C2 exon
TGACTGTGCCCGATTCTGCTTCTCAAGCCCCACCCAGTCCGGCTGCAGCACCACCTCCACCTCCTCCACCCCCTCCACTACCTGGCGCTGAAGCACCTCCTCCTCCTCCACCACCTCCTCCTCCTTCTGGAAGTGGAGGTGCTCCTCCCCCTCCCCCTCCGCCACCTCCCCCTGGTGGAGGTCCACCACCACCCCCGCCTCCACCGGGCTCTGGGCCTCCACCTCCTCCTGGAGCTCCTCCTGCCCCTGGAGCTGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055713:ENSDART00000151144:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.912 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0636711=Drf_FH3=PD(17.3=37.4)
A:
NA
C2:
NO
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:
CACGCTACAGCAGAGAGAACG
R:
GAGGAGGAGGAGGTGCTTCAG
Band lengths:
347-1281
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]