GgaINT0057270 @ galGal3
Intron Retention
Gene
ENSGALG00000020492 | MUC6_CHICK
Description
NA
Coordinates
chr5:16132941-16133837:+
Coord C1 exon
chr5:16132941-16133073
Coord A exon
chr5:16133074-16133587
Coord C2 exon
chr5:16133588-16133837
Length
514 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
ACTCTCCTCTTGTTTTACAGCCA
3' ss Score
10.35
Exon sequences
Seq C1 exon
AGGTGCGTCTACCAAGCCTGTAATTATGAGGAGACCTTTCCTTATATTTGCTCTGCTCTGGGATCATACGCACGGACATGCAGTTCAATGGGTTTAATCCTTGAGAACTGGAGAAACAGTATGGACAATTGCA
Seq A exon
GTAAGTAACTCAACTAATGCATTTCTGCCATCAGGCTATTGCACACATATGGATCTACTAGAAAATGCCCAGGTTTGCTTCACCTGTGACAAAAACTGAGTAAGAATGAGACAATATTTTAAAACTACATTAGCCATTAGAAAATAACTACTTATTACTTTACAAGACCAACTAGCAGGTATACAAGCCACATTCACATGAACCAATGGCTTTCAGAATTGTGTAAAAATATTTCTGCAAAGTTTCCCCCTGCATTATTTCATTCCAAGATACACAAAGAGGCAATAAGATGATATACAACCTTCAAAAACTTCCAAGCAGACATATGAATATCTGCTCTGAAATATTGTTTACTACCGCTCCACATCCTCAGGAAAAAAAAAGCAATAGCTAGCCTTAAGTATTGAAGTCACTGACAGAATATATGCAGCACATTCCTGTCAGCCCAGTTATCTTTCACTGGGAAAAAGACAAGGAAATGAAGTTCAGCATACACTCTCCTCTTGTTTTACAG
Seq C2 exon
CCATTACTTGTACTGGCAATCAAACATTCAGCTACAACACTCAGGCATGTGAAAGGACGTGCTTGTCACTCTCCAACCCAACCCTGGAATGTCACCCAACTGACATCCCAATTGAAGGCTGCAATTGTCCTAAAGGGATGTATCTGAACCACAAGAATGAATGTGTTCGTAAATCTCATTGTCCCTGCTATTTAGAAGATAGGAAGTACATCTTACCTGATCAGTCAACAATGACTGGTGGGATAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020492:ENSGALT00000032694:14
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(57.1=100)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=69.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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:
GTGCGTCTACCAAGCCTGTAA
R:
TGACTGATCAGGTAAGATGTACTTCC
Band lengths:
358-872
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]