GgaINT0057279 @ galGal3
Intron Retention
Gene
ENSGALG00000020492 | MUC6_CHICK
Description
NA
Coordinates
chr5:16140660-16141707:+
Coord C1 exon
chr5:16140660-16140816
Coord A exon
chr5:16140817-16141566
Coord C2 exon
chr5:16141567-16141707
Length
750 bp
Sequences
Splice sites
5' ss Seq
GCCGTAAGT
5' ss Score
10.11
3' ss Seq
TCTGGTTTTGCCATTTCTAGCTG
3' ss Score
7.98
Exon sequences
Seq C1 exon
GTGAATCGTATGCCCTATTATGAGGCCTGTGTCCGAGACTCATGTGGTTGTGACATTGGAGGTGACTGTGAATGCATGTGTGATGCCATTGCAGTATATGCAATGGCATGTTTAGATAAGGGCATCTGCATTGACTGGAGGACTCCTGAATTTTGCC
Seq A exon
GTAAGTTTCTTTAAGATTTCTTTAAGGCAGTTGAAGAGACAATCATTGCTAATGTGAGTATATTAATATAGCAACACAAGAAATTGCTTATATATGCACCTCCTCCTTTCCATTTTCTTTATGGACAAATAGGTGACTTCAGTCACCTGAGTTTTGAAATCTGTACTTTTCCTTTGTGCTCAACAACCAAAATATTATGTCTGTTTGTACCGTGGAATGATGGGAGAGAAAATGAAGTAGCCACAGAAGGCATTTTATTTTTTCTGCTGTCAATGTATGATGAACAGTCAGTTTGTAAGCAGAAAAAATATGAAATTGTAAAAAACTATTGTTTTTGTCTGTGATGAATTCATCTTCTATGTGAATGTCGAGGGAATAAAGACAGCTGTGTTGGCTAGAACACTGTGAAACAGAAAAATATCAGTATGTCCCAGACACCATACATAGAGGAAAAGAGAGAGAGTGAGGGTGTTACAAATCAATGCTGAAGTTATCATCTTTGATGGTTTCTTTTCAGTATTCACTGTATTATGCATTAAAATTATGGAAATTGCTGCACAGTTAATTCACAAAGAAAGAAAACAACTTACATCACTAAAGCAAATTTCAATTTGCATGAGATACTGAAAATTCCAGTGACAATTTTTTATACTCAAGCTGCTGATAAATTTTGTCCTCCCTTTAGTCCTTTGAAAACAACATTCTCTCTTTGAAAAATTCTGACCTTTCTTCTGGTTTTGCCATTTCTAG
Seq C2 exon
CTGTCTATTGTGAGTATTACAATTCTCACAGAAAAACAGGAAGTGGGGGTGCTTATTCCTATGGCTCCAGTGTCAACTGCACCTGGCATTACAGGCCTTGTAATTGTCCAAATCAATACTACAAATATGTGAACATTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020492:ENSGALT00000032694:23
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:
PF087426=C8=FE(69.3=100)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0)
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:
AATCGTATGCCCTATTATGAGGCC
R:
TTGATTTGGACAATTACAAGGCCTG
Band lengths:
270-1020
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]