GgaINT0032044 @ galGal3
Intron Retention
Description
NA
Coordinates
chr9:14296904-14298247:-
Coord C1 exon
chr9:14297645-14298247
Coord A exon
chr9:14297475-14297644
Coord C2 exon
chr9:14296904-14297474
Length
170 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
TTGCGTTGTGTCTGCCCTAGGTG
3' ss Score
11.19
Exon sequences
Seq C1 exon
TACACAGCACTAGCCTGCCCAGCCAACAGCCACTATGAGCCCTGTGCTGCAGCTTGCCCTGCTACATGCGTTAACCCAACCGCATCATACAACTGCAGCTTGCCGTGCGTGGAGGGATGTGTATGCGACAGCGGGTACCTGCTCTACAACAGTCAGTGTGTGCCCAGCCAGCAGTGTGGGTGCTGGCACAACGGGCAGCACTACCCGGTGGGCTCAGAGTTCTGGACGGACAACACCTGCTCGTCCAAGTGCACATGTCCCACGCGAGGAGGCAAAGTCCAGTGCTCCAGTGCATCGTGCCCTGCTGGCCAGTTCTGTGGTGTGCAGAATGGGAAACCCGAGTGCCTGGAACACTCCTACGGCATCTGTCACGTCCACGGGGACCCTCACTACAACACCTTTGACAAGGTGACGCACAACTTCATGGGGAACTGCACGTACACCCTGGCCAAAGTGTGCTCCAACACCTCCGTGCCGTACTTCAACGTTGAGGCAAAGAACGAGCATCGTGGCAACCCCCGAGTGTCCTACGTGCGTGAAGTCGTGGTCGATGTGTATGGAGAGCGCATTACCATACTCAAGCAGGAGAGGAGCCGAGTGCTG
Seq A exon
GTAAGGGAGTGGGTCTGGCGTGTGCGCGGTGGGTCTGCAAGGCAAGGCTGATCTTTTTGGGCAGGGTCTTACCTGCAAGCAGCAGGAGTTTCTGTGTGAGAAGGGAGCCAGTCCCCGTGGGGCTGACGGCCCCAGGGAGTCCACGGTGCATTGCGTTGTGTCTGCCCTAG
Seq C2 exon
GTGAACGGTGAGTACCGGACCCTGCCGGTGAGCGCAGCAGGAGGAGCCATCACCGTGAGCAGTAGCGGCCGCTACGTCGTCCTGGAGACGGACTTCAGCCTCCACGTGTCCTACGACGCTGACCACTCGGTGGAGGTGAAGGTGCCCAGCAGCTACTTCAACCTGACGTGTGGCATGTGCGGGAACTTCAACAACCGGAGAGAGGACGATTACATGATGCCCAACGGGCAGCAAGCCGCAGACTCCAATGCGCTGGGGGAGAGCTGGCAGGTCCCAAGCAGTGACAGTGACCCCAGCTGCGGCGTGCCCCCACCAACAGAGCCCTGCCCTGCAGACAAGGAGAAGCTCTACGAGTCCGAGCAGTTCTGTGGCATGCTGACAGCCAGACCAGGCGTTTTTGAGAGCTGCCACGCCGTGATCAACCCGCAGAGCTACTTTGAGACCTGCTCCTACGACCTTTGTGCCATGAGTGGTGCGCAGGAGGTGCTGTGTGGTGCGCTGGAGGCCTATGCTGACGCATGCCAGGCAGCTGGTGTGACTCTGCTCCCCTGGAGGAATGCCACCTTCTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007208:ENSGALT00000011664:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=NA C2=0.147
Domain overlap (PFAM):
C1:
PF0182612=TIL=WD(100=26.9),PF127142=TILa=WD(100=28.4),PF0009420=VWD=PU(50.0=38.8),PF133491=DUF4097=PU(42.6=24.4)
A:
NA
C2:
PF0009420=VWD=PD(48.7=39.8),PF133491=DUF4097=PD(55.7=33.5),PF087426=C8=WD(100=39.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGTCCTACGTGCGTGAAG
R:
CAGGTTGAAGTAGCTGCTGGG
Band lengths:
248-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]