GgaINT0057272 @ galGal3
Intron Retention
Gene
ENSGALG00000020492 | MUC6_CHICK
Description
NA
Coordinates
chr5:16134917-16135173:+
Coord C1 exon
chr5:16134917-16134969
Coord A exon
chr5:16134970-16135063
Coord C2 exon
chr5:16135064-16135173
Length
94 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TTTTTGTTCCTTTCTCATAGAGA
3' ss Score
9.49
Exon sequences
Seq C1 exon
CTACTGTGTTAATGGGAGGCTAAGTTGCACTGGCAAACTTCAAAATCCTGCAG
Seq A exon
GTATGAGTCTGCTATTACCTTGAAATACATTCTTTTCCACTATAAAATTGTTATTTCAAAATCTCTCATGTTTGTTTTTGTTCCTTTCTCATAG
Seq C2 exon
AGAGCTGCAAAGCTCCTAAGAAATATATATCATGTTCTGACAGCTTGGAAAACAAGTATGGCGCTACATGTGCCCCTACTTGTCAGATGCTGGCTACTGGAATTGAATGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020492:ENSGALT00000032694:16
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:
NO
A:
NA
C2:
PF0182612=TIL=PU(53.1=91.9)
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:
TGTGTTAATGGGAGGCTAAGTTGC
R:
GCATTCAATTCCAGTAGCCAGC
Band lengths:
159-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]