GgaINT0126013 @ galGal3
Intron Retention
Gene
ENSGALG00000002982 | F1NAR8_CHICK
Description
NA
Coordinates
chr17:7607560-7607944:-
Coord C1 exon
chr17:7607792-7607944
Coord A exon
chr17:7607669-7607791
Coord C2 exon
chr17:7607560-7607668
Length
123 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CATCGCTTTTGCTGTTGCAGAAA
3' ss Score
9.74
Exon sequences
Seq C1 exon
AGCCAGCGGATTTCCTGTGCTGAGATCAAGGATCCCTTCATCTACAAGCCCATCCTGATTGCTGTGGGGATGAGGTTCCTGCAGCAGCTCTCTGGTGTCACCTGTGTCCTCGTGTACCTGCAGCCGATATTCAAGAAGACGGCCGTCATCCTG
Seq A exon
GTGAGCCCCTGGTGCAGCCCAGTGATGTCTGCCACGTCCCATGCAGATCCGAGACCCCGACCCTGCAGCCTGTTTTGAAGCAGGTCTCCCACCTCAGCTTCCCCATCGCTTTTGCTGTTGCAG
Seq C2 exon
AAACCGGAGTACGATGCAGCCCTCGTGGGCCTGGTCCGGCTGTTCTCAGTGGCCATCGCTGCTGTGTCGATGGATAAAGCTGGGAGGAAGATCCTTCTCTTTGTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002982:ENSGALT00000004719:6
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:
PF0008319=Sugar_tr=FE(12.1=100)
A:
NA
C2:
PF0008319=Sugar_tr=PD(10.6=86.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGGATTTCCTGTGCTGAGAT
R:
GGATCTTCCTCCCAGCTTTATCC
Band lengths:
242-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]