GgaINT0127258 @ galGal3
Intron Retention
Gene
ENSGALG00000001183 | Q789A6_CHICK
Description
NA
Coordinates
chr18:1700731-1702507:-
Coord C1 exon
chr18:1702363-1702507
Coord A exon
chr18:1700938-1702362
Coord C2 exon
chr18:1700731-1700937
Length
1425 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
GTTGTTTTTTTCTTTCCTAGTTC
3' ss Score
8.85
Exon sequences
Seq C1 exon
GACAAAACGTGAGCAGGAAGTGGCTGAGCTGAAGAAAGCAATTGAAGAGGAAACCAAGAACCATGAAGCACAGATCCAGGAGATCAGGCAGAGGCATGCTACTGCCCTGGAAGAGCTCTCTGAACAACTTGAACAGGCCAAAAGG
Seq A exon
GTGAGCAGAAAATGAAATGTATTATTCTGCTTCTGGGTTTTACATAGGTAATGTAACTGTCCTAGGACCTTCTGCTCACATCTGCAGAGCTAAATTATCTTTGTACGTACGTTACTGTTGTAATTGAACCAAATGTATTGCATGTGAATATATTGAAACTCCTGGATTTGGCATCTGTGTGAAAAGCCTTGTTCAGTCTTGGAAGAAGTACACCTAGAGATAAAATCACGTGGGAGTTATCCAGCAATCCACATGCTTATTTGGTGAAAAGAGTTCACAGCATGAGTGATCAGCAGAATGCTTCCAAATATGGACATTGTAGCATCAGCACTCAGAAATAATGAGCTCTGAGTGCAGGTATTGTGAAGTTCTTCCAGCCATTCCAACTCTGTACTTGTACTGGGAACTCCAGTGCTAGCTATGTGTGGAGCATCTGGCCCAGCTGTACAGCTATATTGTCTTCTGTGGTAACCACCACCAGAGCAGGTAGGAGGAGGCACTCCTTTGTTATTAGCCATAGGTAGCATTATTTCTGCTAGTGGGTGTTTTGTTCAAGAGCAGAATTATTCCAGCACTGCCAAAAAGAGCATTTAGCTTCTGTGATGGCAGCCTTGGTCATTCACAAATATATCTGTGGGCAGTTCATAAGCAGTAGCCCTATTTTTATACAGGGAATAACTCACAGAATTTCTTAACTGAAAATACTGAGTGAGAAATGCAGCAGTTAAACTGCTGGAAAATGAGCTTTTTTCACTTGAAGATCTTATATACTCTGCTTCTTGTTTAATAAATGTCGACAATAGAGAGTGAAAAATGGAAAAGTACCCTGCAGTCTTAAACATGGGTCCTCTGAGAAAATGATGTCAGTTTTGGTGAGGATGGAACTGGTAGAACTAGTAGTGAGAATGGAACATAAAAATAATTGGCTTAAGAGATGTTTCAAAAGATTTTTTTTGACAAATGTCAGTGCAGTGGTGGAAAGTGCTTTGTTTTGCACTTCCAGGCTGCTATGCCTACTAAATTCAGGGCAACTTCAGCTGCTATCTTTCCTTTTATTTCTGTGAGATGAGCCATGCTGATCTGTTAATGGGCACATTCCTTCCTACTTACACTGTGACTCAAACAGTCATTTTACAGCACTGATGTCCCAGATCTTACTGAAGTCACAGAAGAGTCTTGTGGTGCTCACTGATACCTGTAATGTCTGAAAGTGGATTAACTTGCATTAACTCGTTTTTGTCCAACATACACAGAATGTTACCTGGCAACATTTTAAACACTCTACTTGCAGCTTGCTGAGTACTTGTTTTATCTTTGAACTTGTAAAGTGGATTTGTTGGACTGGTCTATTTTTTTTTAGCAGATTCCTTTATTGATATATGTAACAAACTGTTGAATTTCTTTTGTTGTTTTTTTCTTTCCTAG
Seq C2 exon
TTCAAAGCAAACCTTGAAAAAAACAAGCAAGGCCTGGAGTCTGACAACAAGGAGTTGGCCTGTGAAGTGAAGGTGTTGCAGCAGGTCAAGGCAGAGTCTGAGCATAAGAGGAAGAAGCTTGATGCTCAGGTACAAGAACTGACTGCTAAGGTCACAGAAGGCGAAAGACTGAGGGTGGAGCTGGCGGAGAAAGCTAACAAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001183:ENSGALT00000023397:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.816 A=NA C2=0.420
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(5.6=100)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(7.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAACGTGAGCAGGAAGTGGC
R:
TTGTTAGCTTTCTCCGCCAGC
Band lengths:
342-1767
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]