GgaINT0057266 @ galGal3
Intron Retention
Gene
ENSGALG00000020492 | MUC6_CHICK
Description
NA
Coordinates
chr5:16128773-16129266:+
Coord C1 exon
chr5:16128773-16128845
Coord A exon
chr5:16128846-16129128
Coord C2 exon
chr5:16129129-16129266
Length
283 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
AAATCTTCTTCTTCTTTTAGGAG
3' ss Score
9.55
Exon sequences
Seq C1 exon
GACAAAATTGTGATTTCTCAGAATGAACTCCTTACTGATGATGATGAACTTAAGCGGCTACCTTACAAATCAG
Seq A exon
GTAAAGAAACGAGAAGATATGTACAATCTGAACTATATTAAATGCCTGTTTTACATCATGCAACCCAACATCTTTAATCTCGCTATTGCTAGTAACAGTCAACAGGTCTCACAGGAAAATTATAATCTTTTCCAGTGCATCTGTCCCTGTGTGGAAACTTGAATGTGGAAGGAAAAGATGTGTAGACAGAATGCTTGAACATTTATATATTCATTAAAATCACTACTTAAACAGTATTACTATGCTTGAATATCTCTGTTTTTAAATCTTCTTCTTCTTTTAG
Seq C2 exon
GAGACATCACTATTTTCAAACAGTCCTCGATGTTCATTCAAATGCATACAGAATTTGGTCTGGAACTCGTTGTTCAAACATCACCTGTGTTTCAGGCCTATGTTAAAGTCAGTGCACAATTCCAAGGCAGAACCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020492:ENSGALT00000032694:10
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(15.6=100)
A:
NA
C2:
PF0009420=VWD=FE(29.9=100)
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:
AATTGTGATTTCTCAGAATGAACTCC
R:
AGGGTTCTGCCTTGGAATTGTG
Band lengths:
204-487
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]