GgaINT0123603 @ galGal3
Intron Retention
Description
NA
Coordinates
chr16:54088-55623:-
Coord C1 exon
chr16:55296-55623
Coord A exon
chr16:54373-55295
Coord C2 exon
chr16:54088-54372
Length
923 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGC
5' ss Score
2.46
3' ss Seq
CATCCCTGTCCCCACTCCAGCTC
3' ss Score
7.87
Exon sequences
Seq C1 exon
AGGTCGCTGCCAGCACTGCCATCTCCCCTCTATCCCCCCAATGCAGGTGCCTTCATGGTGCATGTGGCCAACTCCTGCCCACTGGCAGCCAATGGCTCTCTGCGCGGCTTCGACCTCACCGTGGCCTTCAACAAGAACCCTCTGGTGTGCTACGACCCCGATGGCCACCTCTTCAACGCCTGCGACTGGGGGCTGCTGCACGGCGTGGCTGGACAGATTGCCATTGCCCTCAACAATGACAGCACCTGGGTGCAGCGTGCAGAGGCACGGAGACGGGCGTGCAGCAAACTGGCTGCACAGTTCTGGGCACAGACGGCGCTGCGCAGGA
Seq A exon
GTGAGCATTGCAAATGGGGCTGTTGCACGGGGCGTTGCATGGGGATGATGTTGCATGGGGCATTGCATGAAGATGGTGCTGCATAGGGCGTCGCATGGGGATGTTGCATGAAGATGTGTAGCAATGATGCATGGGACATTCCATGGGGATGCTGCATGAGGGTGTTGTTTAGCAATGATGCATGGGGTGCTGCATGGGAATGTTGCATGAAGATGTGTAGCAATGATGCATGGGGCATTCCATGGGGAGGCTGCATGAGAGCGCTGTGTAGCAATGATGCATGGGGTGCTGCATGGGGATGTTGCATGGAGATATTGCATGGGGCATTGCATGGGGTTGATCCATGCAGCGTTACATGGGGTTCTCAAGCAGGGGGATGTTGCATGGAAAGGTTGCATGGAAAATTGCACAGAGGTGTTGCAAAGCATATGCATGGGGATGTTGTATGGAGGATCGGACGGTGGCTTTGAAGAACATTCTGCATGGGGCATTGCTTAAGGGTCCCAAGCATGGGGATGCTGCAAGGAAATGCTGCTGCTTGGTGGCCTTGCAGAGTGTGTTGCATGGAGTTTGCTTCAAGGAGATGTTGCATGGCGTATCATCTGCAGTTTTGCAGAGCACATTGCATTGCACATTGCACACTGCACAGAGCAGTGCACTGGGCATCTCCCAGCGTGTGGCACAACGCTGTTGCAAAGGACATCCCACGAGGTGTTGCAGCAAACAATGCGCAGAGCTTGCACAGAATGTGGGATATCCCATGGAGATGTGGCACAGAGCATTGCGTGGGGAATCCTACAGGGAAGTGAGATGGGGAAGTTGCACAGAGCGTTGCAAGGGGTATTGCACAGAGGGAACTTGCAGAGAATGGGGCAGGAACCGTCCCCATCCCCTGCTGCTCACCATCCCTGTCCCCACTCCAG
Seq C2 exon
CTCAGCCCCAGGTCCGCATCGTCCCCGCACAGACAGGGAACCCCAGCGTGCCCATCCGCCTCACCTGCCACGTGTGGGGCTTCTACCCCCCCGAGGTGACCATCATCTGGCTACACAATGGGGACATCGTGGGGCCTGGAGACCACTCGCCCATGTTCGCCATCCCCAATGGGAACTGGACCTACCAGACACAGGTGGCCCTCTCGGTGGCCCCAGAGGTGGGGGACACCTACACGTGCTCGGTGCAGCATGCTAGCTTGGAGGAGCCCCTCCTGGAGGACTGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000166:ENSGALT00000000222:2
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=0.047
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0765410=C1-set=WD(100=87.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
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:
CTCACCGTGGCCTTCAACAAG
R:
CGATGTCCCCATTGTGTAGCC
Band lengths:
343-1266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]