GgaINT0057276 @ galGal3
Intron Retention
Gene
ENSGALG00000020492 | MUC6_CHICK
Description
NA
Coordinates
chr5:16137625-16138723:+
Coord C1 exon
chr5:16137625-16137735
Coord A exon
chr5:16137736-16138537
Coord C2 exon
chr5:16138538-16138723
Length
802 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGA
5' ss Score
7.83
3' ss Seq
ATGCACAACTTTTCTTCCAGAAT
3' ss Score
6.25
Exon sequences
Seq C1 exon
GATGGCTGCAATGTTAATAGACCTCTTTCCTCTTTTAAAATTGTTACTGAGAATGTCATTTGTGGGAAATCAGGGGTTACATGCTCTAGATCCATCAGCATTTACCTTGGG
Seq A exon
GTAAGATCTTCATTTTACTGTTAGTAAGTTTTGCAGTTCTCACCTATACTTGAACACCAATGCACAGTATTATCTTCTCACCTTTAAGTCTTACATTATAATCAGAGAGAAGTTTATGGACAGCTGAGGTTTTACCCCAATGAACAGTCACCGCAATCAGTACACGTTTGCCACATTGCTGTGTATTGGCAGTTTTAGTTCACCAGTGCTGCACTTAGGATCTAGTTTCCTAAGTGCATACTCCATACAAACCTTTTTACTGATTCTGTAGATTTGAAACACTATGGTATGTTGGGAGTTATCTTTTAAAGTACACATGAGAGGAGAGAGTAGAAGAGCCCAAGGGATATACTGACTTTCTCTGCAACCTTTCTTTTTTTCCTAATACATGAAGATAGACCTCCTCTACTCTGCTGGCTGCAGATGGCTGGCTGGCTGTAATACATGCATAAAATGTGATCAGAGTTCTAGTATACCTAACAATGAGACTGAAACAACATATTTTTTAATATTTCTTATGAACATTTGCATATAAATAAAAAAAAATCCAAAGGAAATAAAAGCCAATCATTTTAAGATAGGGTGACAACCCAAGGAAACTCGCTTACCTTTTAAGATCTTCATCGCTGCTGACAGTAAGTTATTCGGAAGTTTCTGGCTACTGTAAAAAATGACAAGATTTTCTGTAGCAGCATAGTACCTGATCTGCAACGATGATTCATGGAAAGTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACTTGATAATTTATAAAATATGCACAACTTTTCTTCCAG
Seq C2 exon
AATTTGACTATCATACTGCGAGATGAAACCTACTCTATTTCTGGGAAAAATCTTCAAGTGAAGTATAATGTGAAAAAGAACGCCCTCCACCTGATGTTTGATATCATTATCCCGGGAAAATATAACATGACTCTTATATGGAATAAGCACATGAACTTCTTCATCAAGATCTCCAGGGAAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020492:ENSGALT00000032694:20
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(23.7=100)
A:
NA
C2:
PF0009420=VWD=FE(40.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
TGGCTGCAATGTTAATAGACCTCT
R:
TGTGTTTCCCTGGAGATCTTGA
Band lengths:
294-1096
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]