GgaINT0057258 @ galGal3
Intron Retention
Gene
ENSGALG00000020492 | MUC6_CHICK
Description
NA
Coordinates
chr5:16122183-16123213:+
Coord C1 exon
chr5:16122183-16122309
Coord A exon
chr5:16122310-16123125
Coord C2 exon
chr5:16123126-16123213
Length
816 bp
Sequences
Splice sites
5' ss Seq
ATGGTTAGT
5' ss Score
7.07
3' ss Seq
TTCCTTTGATTTTATTTTAGGTT
3' ss Score
10.47
Exon sequences
Seq C1 exon
TGTCATCAAACTGCCTTACGCCAGCAATGGAATTCAAATAGCACCTTATGGGCGCAGTGTCCGCCTTGTTGCCAAACTGATGGAGATGGAACTAGTTGTCATGTGGAACAATGAGGACTACCTCATG
Seq A exon
GTTAGTAAAATATTCTCATGATGCAGAAAATAAAATTCTCACTGACTTACTGGATTGACAGTTTTTAGATATAATTGGTGCTTTTTGGATGTGCTTACTATTTGGGTATTTATTTTATTTCCTGTTTCATCTGTTAACCTTCTTGCTTTTTATACCTACGTTTTTTTAAATTCCAGCATTGGTTGTTATCTGAAGCAACCAGTGTTGAGATCTGTGGATGTTTTCTTGGATTCTGTGCTTTCCTGAGGCTATTCCAGCGGCATGATACACTACATTCCAGCACATGCTATATTTTACACACAGTCCAATTATTTTCTGTGATTTAAGATTTTCAAGATAATTTGTTGATTATAATCAGAAGCAAGATTACCACTTCACTATCTAAAGCAATAAATAAATGAATAACCTTCCTCTGAAAGTAAATTTTCTTCCTGTAACATTGAATTTCTTCAGAGAACAATCCTGAAATACATGCCTTGTCAACAAAGTTACAAAATGAAACAGTATCTTTTCCTTTTCTATTTCTCTCCAGCTCCTTGCAGTATTAGCCTCACTCAGTTAACTGCAAATCTCCTAGAATCTTGTTTTTATGTTGAATAAAAAAAAAAAATAAAATAAATCACAACATTCACTACATGCTGATAAGGAAAGGAAGTTGCTGCTTTTAAAACTCTTCATCCAGTCAAGTCAATGATATTAATAAGAGGGATTTCCTTTAACTGGATTCTTGAGCTGAATTTGTTTGATAAAGTAGTACTGTGTAGATCATTTTAATTAGGGTGATTCTTTTATATGTTTCCTTTGATTTTATTTTAG
Seq C2 exon
GTTTTGACTGAAAAAAAATACATGGGGAAGACTTGTGGAATGTGTGGAAATTATGATGGCTATGAACTAAATGACTTTGTGAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020492:ENSGALT00000032694:2
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=FE(31.1=100)
A:
NA
C2:
PF0009420=VWD=FE(21.5=100)
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:
GTCATCAAACTGCCTTACGCC
R:
CTTCACTCACAAAGTCATTTAGTTCA
Band lengths:
214-1030
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]