GgaINT0123649 @ galGal3
Intron Retention
Description
NA
Coordinates
chr16:22208-24183:+
Coord C1 exon
chr16:22208-22361
Coord A exon
chr16:22362-23364
Coord C2 exon
chr16:23365-24183
Length
1003 bp
Sequences
Splice sites
5' ss Seq
CCTGTATGT
5' ss Score
4.27
3' ss Seq
GATTTCCTTTGTTTTCACAGTGC
3' ss Score
8.53
Exon sequences
Seq C1 exon
GATGAACCAGCAGCACTGACCACCCATGAGCTGCCTGGATCTGCAGTCACCTTTGAGGTGACAGGGCTGACACCTGGACAAGCTTTTGAGATCTTCATCCAGGCCCAGCGGGAGCAGCACCTTGGGGCGCCGGGCACGCTGCGTGTCCGCACCT
Seq A exon
GTATGTGCCACCTGCTGTGGGACAGGCATGGGGACAGAAGGGGCATGGGGTAGCATGGGGAGGCATGAGAGCAGCAGGGGTTTGGAAGTGGCATGGGGAGGCATGGGGACAGCAGGGTATGGAAGTGGCATGGGGACAGCAAGGGGGACAGAAGGGGCATGGGGTGGCATTGGCACAAGAATGAGGGCAGAGATGACATGGGAGAGGGACAGCATGCATGGAGACAGCATTCAGCACAGATGTGGGAATGAGCATAGCACAAGGACAGGCATGGGGACAGGAATAATGCAAGCACAAGGGTGGGGACATCATGGGCATGGGGTTTGAGGTGGGGACAGGGATGAGTGAGGTGGGGACAAGCATGGAAATGAAAATGGGATATGGACAGGGATGGGCATGTCACAGCTAGAGAGATGGAGGAAGGAACAGGCATGGGGATAGGGATACGATTGAAGGCAGATGGGGCAGGGATGGGTACTGGAATGGAAGTGGAGACGGGTGGTGTCCACAGCCTCTGTCTGTCCCCACGTGTCTTTATTGTTCCCATGGCTCTATGGGTCCACATGCATCTGTCTGTCTTGCAGAGGTCTGTGTGTCAGCAGTCTGTCCCTGTGGGTCCACATGTCTCCCTGGGCCTGTCCGTCTGCATCTATCCCCATGGGGCCGCGTGTCCCATGGGCTCATCTGTTCACTTGGGGCCTTGTGTCCCTTCAGGTCTGTGTGACCCCAGTCCATCCCCATGTGTCCCTGTGGGTCCACATGTCTCCACATGTCCTGATGCTTCCCTGTGGGTCCCTCTGTTCCTATCTGTCTGTCCTAGTCTGTCCTCATGAGTCTGGATGTCTCCAGGCTCTCCCTATGGTTCCCAATGTCCACAGTCTGCCCCTAGGCATCTGTTTGTCCTCCTCTGTTCCTGTGTCCATCCATCCCTGTGTCCCTGGGCTGTGGCAGATGAGGGATTTTGGGGACAGGGTAGTGACCTGGATTTCCTTTGTTTTCACAG
Seq C2 exon
TGCTTGCCCAGTCTCTGCCCAACCATGGGGGGCCACGGGGGACCCCTACATTTCTGGCATCTCCAGTGGCCCCAGCATCACCATCAGCCCGACAGTCTCCAGCATCCCCATGGTCCCCAGTGTCACTGGGGTCCTTGGGGTCACCAGCATCCCTGAGGTCTCCAGTGTCACCAGAGTCCTCAGCAGCACCAGCTTCCATGGAATCCCCATGGTCCCCAGCATCCCCACACTCCCCAGAGTCCCCAGCATCCCCAGTGTCCCCGAGGTCACCTACATCTCCATGGTCCCCAGCATCCCCACAGTCCCCACTATCTCCAGCATCCCCTATATCCCCAGTGCTCCCAAATGTCCCATCCCTGCATGAGCTGGGGGTCAAGCTTTCTTCCTACAATGGGTCCTTGCTGCAGCGCCTGGAAAGCCACCTCCGGGCCACCAATTTCCCACTCCGAGGCAACCAAACAGTGCCTGCAGTGGCCCGTGCCATCCTCTCCTACCTGCTTCGCCGCAGCCCAGCCTCACTGCGTTATCAGTTCCTCCGCCACCTCCAGCAGAACCCCCACCCCAAACCCCAGGTGTTGCCAGGGGCTGCTGGTGAAGCCCTGGTGGACTTGGATGGGCTGAGGGGTCACGCGGAGACAGTAGTGATCCGCTACCGGCTGCTGGAGGAGCCGGAGGGGGATGAGGGGGAGGTGAGGGTGCCAGGGGACACCACAGTGGCCCGGGTGCCAGGGCTGGTGCCAGGGGCCACATACCGGGTGGAGGTGCACGGTGTGGTGCGGGGACGTGTCTCCAAGTCCTACACTTCCCTGGTGACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000182:ENSGALT00000000238:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.437 A=NA C2=0.609
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(54.3=84.6)
A:
NA
C2:
PF0004116=fn3=WD(100=24.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGATCTTCATCCAGGCCCA
R:
TGGAGATGTAGGTGACCTCGG
Band lengths:
349-1352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]