GgaINT0051531 @ galGal3
Intron Retention
Gene
ENSGALG00000006717 | MUC5B
Description
NA
Coordinates
chr5:15974986-15975796:-
Coord C1 exon
chr5:15975617-15975796
Coord A exon
chr5:15975223-15975616
Coord C2 exon
chr5:15974986-15975222
Length
394 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TGCCTACACAAATTACTCAGGGA
3' ss Score
3.5
Exon sequences
Seq C1 exon
AGCAGTGAAATCAGGCTTTTGGAAGGAAGAATTCAGGAGATAGCCACTGACCCAGGAGCTGAGAAGAATTATAAGGTGGATCTCAGAGGAGGTTATATTGTGATTGAAACAACTCAAGGGATGAGCTTCATGTGGGACCAGAAGACGACCGTTGTTGTTCATGTGACACCATCTTTCCAG
Seq A exon
GTAGGTGCAGAACAGACTGAGTTACAATTACAAACTCAAAGTCAGACACCCAGAACTGAAACCCCAGTTTGAAATTCAGGGCTTGGAGAAGTGTTCAGTCCCATGGACAAAAAGCAGCGAGTGGGATGTGCTTTGTGTTTTGTTTCATTGTCCAGTTGGTATGGAATGCTCCGAAATATTGGGAGCTAGAAGTAAAGCCAGATATTTTGAGTACTGGTGGGCTAAAAGAGTGATCTTGTCACTTCCAGTACAGCTTTTTCTAAAACATATTTTGATGGCTGTTTAGAAATTCGCAGTTATTTTTCCTTGGCTTGCTCTGTAGTTTATTTCTGTCAAAGAGTGGGCTACACTCAAAATAACCAAATCACTTACTGTGCCTACACAAATTACTCAG
Seq C2 exon
GGAAAAGTCTGTGGCCTTTGTGGGGACTTCGATGGCCGTTCAAGGAATGATTTCACAACCAGAGGGCAATCTGTGGAGATGAGCATCCAGGAGTTTGGAAACAGCTGGAAAATAACAAGCACTTGCTCCAATATCAACATGACAGACCTGTGTGCTGATCAGCCTTTCAAATCTGCCTTGGGACAGAAGCACTGCAGCATCATTAAGAGCAGTGTCTTTGAAGCCTGCCACAGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006717:ENSGALT00000010866:22
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:
PF0009420=VWD=FE(39.3=100)
A:
NA
C2:
PF0009420=VWD=PD(15.3=29.1),PF087426=C8=PU(28.0=26.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGAGATAGCCACTGACCCA
R:
TGATGCTGCAGTGCTTCTGTC
Band lengths:
349-743
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]