GgaINT0138213 @ galGal3
Intron Retention
Gene
ENSGALG00000007340 | F1NC10_CHICK
Description
NA
Coordinates
chr24:5617737-5618171:-
Coord C1 exon
chr24:5618006-5618171
Coord A exon
chr24:5617913-5618005
Coord C2 exon
chr24:5617737-5617912
Length
93 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
GAGCACTTCTGTCCCCTCAGCTA
3' ss Score
5.65
Exon sequences
Seq C1 exon
CCTGCGGGCAGCAAACGGCACCGGGGGGCCGCGTGGTGGGGGGCGTGGATGCTGCCCCGGGGCGCTGGCCATGGCAGGTGAGTGTCCGCCACGGCTCCCGGCACCGCTGCGGTGGCTCCGTGCTGGCACCGCGCTGGATCGTCACCGCCGCCCATTGCGTGCACAG
Seq A exon
GTACAGAGCTGCCCTGAGCGCAGCACCTGCAGTGGGGCTCAGGGTCTGTGCTGGGGGCTCAGAACTGCCCTGGGAGCACTTCTGTCCCCTCAG
Seq C2 exon
CTACCGGTGGCGGAGAGCACTGGGCTGGACGGTTCGTGCTGGCGTCACTCGTGGCTCGGCCGAGCAGGAGGTCGGGGTGCCGGTGGAGAGAGTTATTTCTCACCCGCTGTACAATGATAACAGCATGGATTATGACATTGCTCTGATGAAGCTGCGGGTTCCCTTGAATTTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007340:ENSGALT00000011874:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF154941=SRCR_2=PD(5.3=8.9),PF0008921=Trypsin=PU(23.8=78.6)
A:
NA
C2:
PF0008921=Trypsin=FE(31.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCATGGCAGGTGAGTGTC
R:
CACCCCGACCTCCTGCTC
Band lengths:
178-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]