GgaINT0031222 @ galGal3
Intron Retention
Gene
ENSGALG00000005246 | F1NYH7_CHICK
Description
NA
Coordinates
chr9:9000740-9001288:-
Coord C1 exon
chr9:9001192-9001288
Coord A exon
chr9:9000976-9001191
Coord C2 exon
chr9:9000740-9000975
Length
216 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTCCTCCTCCTCTTGTCCAGTCT
3' ss Score
7.22
Exon sequences
Seq C1 exon
CGCGCCGCCGCGATGACCACGCTGGCCGGGGCCGTGCCCAGGATGATGCGGCCCGGAGCCGGGCAGAGCTACCCGCGCGGCGGCTTCCCGTTGGAAG
Seq A exon
GTGAGGGCAGGAGGAGGGGCGGCGGACGGAAAGCGGGGAAGAGTTGGGGGACGGAGCGCGAGCGGAGGTCGGAAGGGGCTGCGGGGACTTCGGGAACTTCGGCCCCGGGTCCCTTCCCGGCGGCCCTCCCCGGTTGGGCGCAACAGGTGCCGGCACGCCGCGGGGCTGCGGGGTCCGAAGGAGACGTTAACGCCGTTTCCTCCTCCTCTTGTCCAG
Seq C2 exon
TCTCTACCCCTCTCGGCCAGGGCAGAGTCAATCAGCTCGGAGGAGTGTTCATCAACGGGCGGCCGCTGCCCAACCATATCCGCCACAAGATCGTGGAGATGGCGCACCACGGCATCCGGCCCTGTGTCATCTCCCGGCAGCTGCGCGTGTCCCACGGCTGCGTCTCCAAGATCCTCTGCCGCTACCAGGAGACGGGATCCATCCGCCCGGGGGCCATCGGCGGCAGCAAACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005246:ENSGALT00000040854:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=NA C2=0.214
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0029213=PAX=PU(58.9=92.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCCCAGGATGATGCGG
R:
CTTGGGTTTGCTGCCGCC
Band lengths:
300-516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]