DreINT0069052 @ danRer10
Intron Retention
Gene
ENSDARG00000055713 | fmnl1a
Description
formin-like 1a [Source:ZFIN;Acc:ZDB-GENE-120215-83]
Coordinates
chr3:37086434-37087715:+
Coord C1 exon
chr3:37086434-37086563
Coord A exon
chr3:37086564-37087551
Coord C2 exon
chr3:37087552-37087715
Length
988 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
CTGACCTTTGCTCTTGTCAGTGT
3' ss Score
7.1
Exon sequences
Seq C1 exon
CTGCTGGACACAAAGTCCACAGACCGCACACAGACTCTGCTGCACTTCATTGCAAATATGGTGCATGAGAAATACCCTGAGCTTACCTCCTTCCACAATGAACTCCGCTTTGTAGACAAGGCTGCTCTAG
Seq A exon
GTAAGACATAATAAGTTAATGTACACAGTGTGTTATGGACATTCATACTATAGTACATTCTGCTTGTTAAGTTGCCTCTACTCATTAAGCAAGAAAACAATGTTCATTAATGACCACTGTTTAATCATATCTCACATTAAAGCAAATCTTTTGCATAAGCATTGTGTTCACAACAATCTCTGGACTTGAGGTCATGAAGACACCAATATCTGAATGATTGATAAAATACTGTCAGATATCTGGTCCTCCAACTTGGGAGTTTAGTGTTATGTAATGACCAACCTCATAAGAATTAGATTTTACGAAACACCAACATGGTGAGGCTAACTACCAACTTTTCTATTTATGGCCCTGGGAGTAAGTAAGCAAGTATAAGACATCTAAGATATTATAGTATTACAACACACTATAAGTTTATATTAGTACCATTTGTTGTTTGCTTTTGTGATCGGAGTTTGGACTATAATTTTGGAACATATATTGGTATATAATTGTACTCCATGAAACCGAAGTTACAATCCTTTTTTCCTCGATCATCACTGTAGTAAATTTTTTTTTCTATTGACATCAGTTTGATGCATCAGCCACAATATTTTTACCATTCATTTGCTATGAGGTAATAATGCACAAAAGAAAGCTCTGCCCCCACTAAATATTTAGTTTCAGTTGGAAGTACATCAACACACTGAAAAAAAATCTCAGCAACTTACGGTTCTCACAAACTTTAAAGCAAAATCTTTTAGAAAATCACAATAATCTCTGGATTGTTCCATTCAAGACACCTATAATTTAAGGATTGGCAGAAACTGTGATGTCAGCAACAAACTGATTCTTCATTTCAGTTCAATTCAATTCAATTCAATTCAATTCAATTCAATTCAATTCAATTCATGTTTATTCTATAGCGCTTTTACAATGTAGATTGTGTCAAAGCAGCTTAACATAGAAATTGTAGTAAACTGAATTCTCTGACCTTTGCTCTTGTCAG
Seq C2 exon
TGTCTCTGGACGGTGTTCTGCAGGATGTAAGATCTCTGGAAAGAGGCATGGAAGGCACCAAGAAGGAGTTTATGGTGCAGGACGACATCCCGGCACTCAAAGAGTTTGTCAAAGCCAACAGTGATGTATTAGACTCCCTCGTTAAAGATGGCAAAACAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055713:ENSDART00000151144:21
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=0.000
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(11.7=100)
A:
NA
C2:
PF0218118=FH2=FE(14.8=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:
GACACAAAGTCCACAGACCGC
R:
TGTGCTGTTTTGCCATCTTTAACG
Band lengths:
287-1275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]