GgaINT0123655 @ galGal3
Intron Retention
Description
NA
Coordinates
chr16:26980-27906:+
Coord C1 exon
chr16:26980-27273
Coord A exon
chr16:27274-27619
Coord C2 exon
chr16:27620-27906
Length
346 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ACTTTGTATTACAGCTGCAGCTC
3' ss Score
-0.19
Exon sequences
Seq C1 exon
CTGCAGAAGAGACGGAGGAGGAACCACCGTCCCAGCCACGCCTAGGAGAGCTGACGGCATCCCATGTCAGCCCCAACTCCGTCCAGCTGGAATGGAGCATCCCTGAGGGCTCCTTTGACTCCTTCACGGTGCAGTACATAGACGTGCAAGGCCAGCCGCAGGAGCTGCACTTGGATAGTGGGTCGCGCACAGTGACCGTGTCTGGTTTGCTGCCATCCCACCCCTACAAGTTCAACCTTTACGGGGTGTGGGGGCAGACACGTCTGGGCCCCATCTCCACTGACACCATCACAG
Seq A exon
GTGAGGGCCCCTGCCTGCTGCTGTGCTCTGGGCCTTGTGCTTGGCACGTGGCAGGAGCTGTGCGATGGGCTGTGCTGGTGGCGGGGATCTGACTGGAAATGGAAACGTTCTGTGGCAAAGAGTGGGAATGTAGGAAGGGGGTGGGAGCATGCAGGGTTGGTGGAGCAGGGGGTAGTGATCAGTGGTGAGGATTTGGTTTCTTGGTCTGAAATATGGATGGAAGCTTTGTTGGGAGAGTGAATGACTTTTCAGTGAGGACAGGTGGATGCTTGGGTGAATGCTTGGTAAGTTGTTGAACGCCTGGATAGTTGGATGGGTGGACATGAACTTTGTATTACAGCTGCAG
Seq C2 exon
CTCCAGCACAGAAGGAACCGCCATCCCAACCACGCCTGGGTGAGCTGACGGCCTCCCACGTCAGCCCCGACTCCGTCCAGCTGGAATGGAGCGTCCCCGAGGGCTCCTTTGACTCCTTCACGGTGCAGTACAAGGATGCACAAGGCCAGCCACAGGTGGTGCCCGTGGACGGTGGGTTGCGCACAGTGACCGTGCCCGGGCTGTCGCCGTCCCGCCGCTACAAGTTCAACCTGTATGGGGTGTGGGGGCGGAAGCGTCTGGGCCCCATGTCCACTGATGCTGTCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000182:ENSGALT00000000238:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.465 A=NA C2=0.448
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=82.8)
A:
NA
C2:
PF0004116=fn3=WD(100=85.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
TTCAACCTTTACGGGGTGTGG
R:
GACAGCATCAGTGGACATGGG
Band lengths:
348-694
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]