GgaINT0051544 @ galGal3
Intron Retention
Gene
ENSGALG00000006717 | MUC5B
Description
NA
Coordinates
chr5:15965928-15966685:-
Coord C1 exon
chr5:15966507-15966685
Coord A exon
chr5:15965998-15966506
Coord C2 exon
chr5:15965928-15965997
Length
509 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGC
5' ss Score
8.99
3' ss Seq
TGTGTTGTGATGCTCTACAGAGG
3' ss Score
6.7
Exon sequences
Seq C1 exon
GAACCTGACTGAGTGCCACCGTGTGGTCCCCCCGCAGCCCTACTATGAGGCATGCGTAGCCAGCAGATGCTCGCAGCAGCACCCCAGCACTGAGTGCCAGAGCATGCAGACATACGCAGCCTTGTGTGGGCTCCACGGGATCTGTGTGGACTGGAGGGGGCAGACGAATGGGCAGTGCG
Seq A exon
GTAAGCCTGGCAAAGACCTGCTGCAGAAGTGGCTTTGATCGGCTCTTTCCTAACGTACACAACCATTTCTATTCCTCTGCATCAGTATTTCCTTAGCTGCTCAGGATCTGAGAAAAATGGGAACAAATTAAGGAGGAAAAAAAAAAAGTTGCAGTCTAGAAATGGTGCAAAACAAGTGGGAAGCAGGTCCATGGGCTCTCCTGAGAAGCTCGCGGAGGAGTGGGCTGGGACATTTCTAATTTTTCTCCTCTTCGTGTTAGCTACAACTTTATCACTAGATGGCATTGCACAGCTTCTCTTCTCACTGCTTGCTCAGGGGCCTTTGATTCCTGTTAAGCACCACTGGTACTGCTGCAAGCACTTGTGGCATGTATGAAGCTCCGCTTGCTGAAGGTGCAGGGACCCCTTGCTGGGCAGGAGCTTGGGCTGTGTTGGCTGCTTGTCCATCATGCATTGAAGGGTATGAGTGGTCCTGGGCTTTCTAACTCCTGTGTTGTGATGCTCTACAG
Seq C2 exon
AGGCCACCTGTGCTCGGGATCAGGTCTACAAGCCATGTGGGGAAGCAAAAAGAAACACTTGCTTCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006717:ENSGALT00000010866:35
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:
PF087426=C8=FE(83.3=100)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=PU(31.7=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACCTGACTGAGTGCCACC
R:
GCTGAAGCAAGTGTTTCTTTTTGC
Band lengths:
247-756
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]