GgaINT0057269 @ galGal3
Intron Retention
Gene
ENSGALG00000020492 | MUC6_CHICK
Description
NA
Coordinates
chr5:16132203-16133073:+
Coord C1 exon
chr5:16132203-16132297
Coord A exon
chr5:16132298-16132940
Coord C2 exon
chr5:16132941-16133073
Length
643 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TCCCTTGTGTTGGGTTTCAGAGG
3' ss Score
8.72
Exon sequences
Seq C1 exon
AAATATCTGCTGAGACTCATTGCTCCATTCTAACGAAGAAGGGTACAGTGTTTGAGACATGCCATGCTGTGGTGAACCCTACTCCTTTCTATAAG
Seq A exon
GTAGGAAATTAAGTTAGATGGAATACAGAGCAAGTACAAAGATGGACCAGACTGAGCTCATATACAGTATGCCACTCATTTGGATCAGCAATGCATAGAAGCTAAGAAACATGCATGTTCTTTTTAAATAAACCTCCACTAGAATGGAAGTCTATTTGGCCCTATGCTACCAATCCTATCCCTAGAATTCCATGGACCACGCTCTCAGGCATATCATTTGACATTGGGGTGGTCTTATGTAGAGCCAAGAAGTGGACTCCATGATCCCCATGGGTCCCTTCCAGTTCAGATTTTTTTATAATTCTAAGAATGAGAAAATATTTTTGTTGCAATTTTTCTTTTCAGAAATTTTAACTATGCAAAGTACTGGTTTTCCCTGCTGTATAATTAAAGTTATTATATTTGCCAATCTCCATGAAACATTTTGAAAATTAAAAATGGAAAGCATTGAATAAACTATATCTTTTCAGTACTAAGCATATTTTACTCATATCTATCAGGCAATTAATCTGATCATTTTCATCTGTTTTAGTTATGCAGAGCCATGTATTTTGCTTGACTTACCTCAGTACTGTTCAGCACATTTAGTACTTCCAAATGCCTGCTCCCAGTAACAGAATAGTTCCCTTGTGTTGGGTTTCAG
Seq C2 exon
AGGTGCGTCTACCAAGCCTGTAATTATGAGGAGACCTTTCCTTATATTTGCTCTGCTCTGGGATCATACGCACGGACATGCAGTTCAATGGGTTTAATCCTTGAGAACTGGAGAAACAGTATGGACAATTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020492:ENSGALT00000032694:13
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=PU(40.3=96.9)
A:
NA
C2:
PF087426=C8=FE(57.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTGAGACTCATTGCTCCA
R:
TGCAATTGTCCATACTGTTTCTCCA
Band lengths:
222-865
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]