GgaINT0057268 @ galGal3
Intron Retention
Gene
ENSGALG00000020492 | MUC6_CHICK
Description
NA
Coordinates
chr5:16130997-16132297:+
Coord C1 exon
chr5:16130997-16131158
Coord A exon
chr5:16131159-16132202
Coord C2 exon
chr5:16132203-16132297
Length
1044 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CATGACTTTGTTTTACTCAGAAA
3' ss Score
6.52
Exon sequences
Seq C1 exon
GTTTGTGTGGTAATTACAATGGAGACACTACAGATGACTTCATGACTAGCATGGATATCACTGAAGGAACAGCTTCCCTATTTGTAGATTCTTGGAGGGCAGGAAATTGCCTTCCTGCTATGGAGAGAGAGACTGACCCTTGTGCTTTGAGTCAGCTGAACA
Seq A exon
GTAAGTAGATGATCCTGTTGTAACTGATCTCTGCAACTAGCTTCATCTGAAACTTCCATAAGTCCAAAGAGTGTTTGAGAGAATCATAGACTGACATGATTGAAAATCACAAGTTCAGTCACCAAGAAGATATTTCTGATTTCTAGAATATACATCTAGTGAAAATTTATTGGATCCCATACTGGAGGTCTGGGATTGAGATGATGAATGAGAACTTCTGTTGATTTTTCCAGTGAAACTGTAATTTCTGTGGATGTCTTAGAATGTCAGCAGTGATGTAACTGAAATCCAGGTCCCTACAGCTATCGGTATTAAAAGGTGCCCAAATGAGCTATTTGAACTACGGTATTGTCTTGCAAGACATACTAAGTTGGCCTTTACTTGATCCATCATTGCCAACATCTCAGCTAGAGTAGCGTGTCTAATTTTGCTGTTAGAAGACAAAATTACAGTTTGAGAAAAGCAGTACCAGCTATAGGGAGAGAGTTCAGACAAGGCTGAAAAGAATATCCTGTGGTCTAGAATTCGTGACCAATTGTGAAATGGGACAAATACACTGAAAGGGAGAATTTAACTGGAAGAAAAATAAATGGAGATTTAGCAGTCCCCAGATCTGCTCAAATGGAAATAACAGTGCCCTCCACACCTCTGTTAGAAAGGATAAAATACAATCTGCAATACATTCAATTTTCCTATTTGATACGTTTTGTAATTATAGGCATAATACTGCTTATAATGATTTGATGGTTTAACTTAATGATCTTGACGGTTTTCTCCAACCTAAACAATTTTAGGATAATGAAGCATTCAAACAGATTGCCCAGAATGTTAAGAAATCTCTATTAATGGAGGTCTTCAGCAATAGTTAGTCAGGCATTAGTCAATGCTAACATAAGCATTTCTGGTATTTCTTTGGCAGGGCTATAAACTAGACAAGCCTTTGAGATCCCTTCCAAGCCTCTAATTCCATAACTGGCAGGGCAAAATCTCCTCCTTCTCCTAACTTTCAATGGTATTTTATGTTCATGACTTTGTTTTACTCAG
Seq C2 exon
AAATATCTGCTGAGACTCATTGCTCCATTCTAACGAAGAAGGGTACAGTGTTTGAGACATGCCATGCTGTGGTGAACCCTACTCCTTTCTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020492:ENSGALT00000032694:12
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(12.3=34.5),PF087426=C8=PU(0.1=0.0)
A:
NA
C2:
PF087426=C8=PU(40.3=96.9)
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:
GTTTGTGTGGTAATTACAATGGAGAC
R:
ATAGAAAGGAGTAGGGTTCACCACA
Band lengths:
254-1298
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]