GgaINT0058700 @ galGal3
Intron Retention
Gene
ENSGALG00000006752 | MUC2
Description
NA
Coordinates
chr5:16045664-16047208:-
Coord C1 exon
chr5:16046969-16047208
Coord A exon
chr5:16045821-16046968
Coord C2 exon
chr5:16045664-16045820
Length
1148 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
ATCATTTCTTTTTCCAACAGGTG
3' ss Score
11.9
Exon sequences
Seq C1 exon
GGGAAAGTGTGTGGTCTGTGTGGCAACTTTGATGACAAGGCCAACAATGACTTTACAAGCAGGAATGGGCTGCAAGAGACAAATGCTTTGACGTTTGGGAATTCCTGGAAACAATCATCTGTGTGCCCTGATGTCACAGAAGAGATTAAGCCCTGTGATCTGAAACCACATCGCAAGTCCTGGGCAGAGAAAGAATGCAGCCTTATCCTGAGTGAAATCTTTAAAATTTGTCATTCCAAG
Seq A exon
GTTTGTAGATGGCAGTAAGTGATGGGATGGCACAGTGCATTTCTGTTACTGCAGGAATAACAAGATATCTCAAATGAATGGAGGAATAGTTAAGCAGACCCATCTTCTGCTAAGTCTTCAGTATAGCTAGAAGTGTCAGCACATTTCAGCTAGCCTTTGTTAAAGTAGTTTATCTGTTACAACTTTGTCAGCAGAGGTGTGTCTCGCTCCAATTTATAGGAGGAAGAGGAAGGAAGGGTTCTCACAAGGTGCCAGCCTCAACTCTAAGAGCTTGTATTTATCACTACTTTTTTGCTGCTACTGCTGTGCAGGTTAGCTTTATAAATCTGGCTTGAATAGGTATCAGCAGTTGTACCATCTCTTGTAGAGAAAATGTCACAGCTATAAATTCTGAGAGGTGTTGCAGTCATCAGACCCATCTTCTGGCAGAACCACGTACTGTACTCGAAATGTGACTGCTGAAGAGACAGCTGCTTCTGTTAATATTCAAACTCAAGAAGTGATTTACTTGGAAATCACTGACTGCGTTTAAACAAGCTTAACTATTAGTACTATGCTATAAATTGTCATAGCTCATCTCTATTTCTTGTCTCTTTCCTGAAGTATACCAATTTTAACAACGATTTGTTTTCATTTAATGGTGGAAAAGTCACAAAAAATAAGATTTTCATTAACTTGGTATGTGTTTCTATATTGATTTCTTCAGGAGCTAAAATCCAATCCAAATTTCTCCTTCTCTGGTCCCAAGCAAAAATGTTGCAATATTTTCCTAATGTGTGACTGGACGAACTCCAAAAACTGGCATGCACAAAATTATTTGCTTTGTATTTGCTATGAAGTGCAGCCTGAGACTGGTGGCTAGCAAAGCTTGCTGGAAGACAAAGTCTTGACTTGCATTCATCCAGCTTGATATTGAGAGCAGTAGAATGGAACTCTGCTAGAAGATGTGGGCATTTAAAAAAGACTTCTTTTTAATCTTAACAATTTATGAAGGTGCTGTATTACTTCATACTAAATACATGAAGCAATTTCTAGTCTATACTCTTCAGCGTTCTCATTCCTGTCCAGCTCAGTTCCCATTGTCTGAAGAGATTTCTCAGGCTTATTAGTTTGGAGATCAACTGTGGCATCATTTCTTTTTCCAACAG
Seq C2 exon
GTGAACCCATCTCCTTTCTATGATGCTTGTGTTCATGATGCCTGCTCTTGTGACAGTGGTGGAGACTGTGATTGCTTCTGTTCTGCTGTTGCTGCATATGCACAAGAATGTACCAAGGCTCAGGCCTGTGTTTTCTGGAGAAGTCCTGATATATGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006752:ENSGALT00000010912:2
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=PD(74.2=28.8),PF087426=C8=PU(28.0=26.2)
A:
NA
C2:
PF087426=C8=FE(69.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
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:
GTGTGGTCTGTGTGGCAACTT
R:
GCCTGAGCCTTGGTACATTCT
Band lengths:
357-1505
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]