GgaINT0143088 @ galGal3
Intron Retention
Gene
ENSGALG00000000694 | FMNL1
Description
NA
Coordinates
chr27:1347798-1348342:+
Coord C1 exon
chr27:1347798-1348000
Coord A exon
chr27:1348001-1348107
Coord C2 exon
chr27:1348108-1348342
Length
107 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
CATTGCCCGTTATGCTGCAGGTA
3' ss Score
8.42
Exon sequences
Seq C1 exon
GAGCTGGACATGAGTGACTTTGAGGAGCAGTTCAAGACCAAAGCGCAGGGCCCTGGCCTGGACATCAGTGCCCTAAAGGTGAAGGCCACACAGAAAGCCCCCAGCAAGGTGACACTCATGGAGTCCAACAGGGCCAAGAACCTGGCCATCACACTCCGCAAGGGCGGCCGCAGCATCCAGGACATCTGCACGGCCATTGAGAC
Seq A exon
GTGAGTGTCCCCTCCTCGGTGGGATGAGGTCACACGGAGTGCTTGGGGTGGCATGGGGTGGGCTGCGCTTTGGGGTGATGGGGATCGCATTGCCCGTTATGCTGCAG
Seq C2 exon
GTACGACCAGCAGGCCCTGAGCCTCGACTTCCTGGAGCTGCTGCTGCGCTTCCTGCCCACTGAGTACGAGCGGACGCTCATCGGGAAGTTCGAGCGGGAGCAGCAGCCGCTGGAGGAGCTCTCGGAGGAGGACCAGTTCATGATCCGCTTCAGCAGGATCCCGCGCCTGGCCGAGCGCATGAACGTCATGATCTTCCTGGGCAACTTCAGCGACACCGCCCAGCTGCTCATGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000694:ENSGALT00000040749:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.103 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(20.4=100)
A:
NA
C2:
PF0218118=FH2=FE(23.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGCAAGGTGACACTCATGG
R:
ATGAACTGGTCCTCCTCCGAG
Band lengths:
244-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]