GgaINT0057278 @ galGal3
Intron Retention
Gene
ENSGALG00000020492 | MUC6_CHICK
Description
NA
Coordinates
chr5:16139238-16140816:+
Coord C1 exon
chr5:16139238-16139477
Coord A exon
chr5:16139478-16140659
Coord C2 exon
chr5:16140660-16140816
Length
1182 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TACTTCATTTTCCAATACAGGTG
3' ss Score
8.61
Exon sequences
Seq C1 exon
GAAACTATCTGTGGTTTGTGTGGAAACTATAATGGCAATATGAAAGATGATTTTGAAACCCGAAGCAAGTATGTGGCATCAAATGAACTGGAATTTGTGAATTCTTGGAAAGAGAATCCTCTCTGTGGGGATGTATACTTTGTAGTGGACCCCTGTAGCAAGAATCCTTATCGTAAAGCTTGGGCAGAAAAGACATGTTCCATCATCAACAGTCAAGTCTTTTCTGCCTGTCACAATAAG
Seq A exon
GTAAGAAATAGTTAGGCCTTCTCTTTATCTATAGGTATAATGTGCATTCTCACAAAATGTTCACACTCCAGCACTTGATTTTCTCTTACCTAAAATGTTCTAATAGAACATATATAAAATATCTCCTGGCTCTCATTCATGTTAATCTTCATCCTCTCTAATTTACACTTTACCAGTCCTTTTGTGGACAAAATCCACACACGAACATTAACTGATTGATTAAAAGTACTGGAATGAGAAAGAAGAAAGAATTCAGTATCAGAAATTAGTCACTCTGTTGAGGCTGGAAAAGGTTTTCGAGATCATCAAGTCCAACCCTTAACCTAACCTCCCAAGTCCCATCTCTAAACCATCTTCCTTAGTGCCATGCCCACATGTCTCTCTAATGCCTCCAGGGATGGCAACTTCACTACTTCCCTGGGCAGCCCATTCCAGCGTTTGACTACCCTCTCCATGAAGAGATTCTTCCTGATATCCAAGCTAATCCTCACCTGACTCAACCTGAGACCATTTCCTCACATCCTATCACTTCTCACTTGAAGAAGGAAATTAACACTCTCCTCACTGCAGCTTCCTTCTAGGTAGCTGTAGAGAGTAATGAGGTCTCCCCTCAGCTTCCTTTTCTCTAGACTAAACAACCCCAATTCCCCAAGGCTATTTTCTTAAGTCATGTATCGATCTTCATAAGCCATGTATTGTAACTTGTATATCATGATATTTATCAGAACCAGGCTTTCTGAAGGAAGATGTGCATTTTCAGGAAGTGACCACAAGTGATAAACGTGGCTAATTCTGCAATGGTCATGCATAGCCATGGAAGCTGTACAGCTGGTGAACTTCAGGCACTTCTGCCTGAATGGATGTGGGTTTTTGTGGTTTTTGTTTTGTTTTCTTTTTTAACTGATTAAATGTATGTTCAATATGAATTTAGACATACATATCTGGAAAAACCCCATCAGCTTCTACTGTTAGTTGGAAAATATCTTCATTCTTGTTAAAAAGAGTTCTTTGAAGTGGGCTTGTTTTGACAAGTGTTCAGTGGAAATACTAGTTACTCTCACTTCAATGGAACGGATTCTCTTGACTTTCTCATGTACTAAGAAGGACCTATGAAAAAACATCTTCTGAAAAAATAGGCACTAAAGAATCCCAGAAAATTCATTACTTCATTTTCCAATACAG
Seq C2 exon
GTGAATCGTATGCCCTATTATGAGGCCTGTGTCCGAGACTCATGTGGTTGTGACATTGGAGGTGACTGTGAATGCATGTGTGATGCCATTGCAGTATATGCAATGGCATGTTTAGATAAGGGCATCTGCATTGACTGGAGGACTCCTGAATTTTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020492:ENSGALT00000032694:22
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(15.1=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
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAAGATGATTTTGAAACCCGAAGC
R:
TCCTCCAGTCAATGCAGATGC
Band lengths:
342-1524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]