GgaINT0127265 @ galGal3
Intron Retention
Gene
ENSGALG00000001183 | Q789A6_CHICK
Description
NA
Coordinates
chr18:1693918-1695624:-
Coord C1 exon
chr18:1695463-1695624
Coord A exon
chr18:1694047-1695462
Coord C2 exon
chr18:1693918-1694046
Length
1416 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TGGGACTTTTCCAACTGCAGGCT
3' ss Score
7.11
Exon sequences
Seq C1 exon
GTGCGAGAGCTGGAGGCAGAGCTGGAGGATGAGCGCAAGCAGAGGGCTCTTGCTGTAGCAGCCAAGAAGAAAATGGAGATGGATCTGAAAGACCTGGAAGGTCAGATAGAAGCTGCAAACAAGGCTCGAGATGAAGCCATCAAACAGCTGCGTAAGCTCCAG
Seq A exon
GTAAGCCCAGCTGATGAACTGTGCTCTGTCCTCTGGTGACTGTCAATTCTGCTGCTTCTCATTAAACACATCTGTAGTTTGAAGGCAAGAGGAATGTTGTACTGCACTGTGCTGGCATGTCACAGAGTATGAACATAGCACCTCTTCACATCTCTTCTCATCCTTCTGTTGGTAAGGAGTTAAGGCTGACCCCATGTATTTTGATTCAGTAGTGGTCTTTTATTTCAACACCTTCTGAAGGATTTACTGAATATTGCTTTACCGAGCAGATTTTTTAAATTTTATGCCTTTTGAATTTACTGATTTGGGCTCAGCTGTTCCTGATTGCTGCTTCCTCAGGAAGAACATCTTAAGGCATTTTCAGCCAAAAATGCTTCAGAGAAAAAGGAGGAGTAACTTCCAGTTGCTTTTAAAAAGCTCCAAGTTGCTCATTCTTCTTCTTTGGCGAGAGAACCCAGTCCTTGCACTGAGGATTTATTTCCCATTCCCAGAAAAATGTTCAACATTTGGTAGAGTTGAGTTTTGCCAAAGATTTTTCAGTGCCATGGCCCAGAACTGCAGAAATGTGAGATTGTGGCAAGACCACATAAGGCACATGGCAAATTAAATTGCCTCTCTGCCCTGTCCTCTCTATGCCTTGGCAATCCAAATGAACAGAGACAACTCTGGAGCAGAGTCCAGGCTGTGAGTGAGGAGGGAAGGCTAAAGCAAGACATGCTGGTACATGGCAGCATCATACTCCTCCTCTCCAGAAGGACAGGTCAGGTAGAGATCTTGTTGCTGTGCTCTGTGTGCCTTCATGTAGACACCCAAAATAAGTATTCTCAAGATCGGAGGCATTTCAAAGATGCAACTGTAATTTAAATGCAGCTTTTCTCTGACTTTCATACTCTTTTAGCATCTTAAGTCAAACTGGTGCAGCTTAACACACACTGAGGTCTTAGCAGTGTGTGTGAGTAGAAGCTAAGCATGTGCTTCTAGCCCATCTGTACAAAACAAGGGGTTTGTTACTTCTGTGCTGAGATAAGTTTTACCTGGTATAATTGTAATATGCTTTTTCAGTCCAAGTATATAGATTTTTTTTTTCCCCAAATCACTCCAAAAGCTTTATCTTTTCCACAAGTTCCACAGCAAATGTAATTGAGCAGCTCTTTATTAGAGTTCTTTTCTCGACAAGAAATATACCAAACAAATTAAGTAAAGCCCTATAATAGGATGTTTCTGATGAGGAATGAATGATGGAGACAAGAAAATGAAGTTAAACTATAAAAATAACTGAAGATGCATTGAAGTGGAATGAAGTCACTCTGGGGGAGGGAGGCCTTTCCTCTGAAGGGTGTCAAAATGCTTCAGAGCTCCTAACAGATCTTGTGGCTGCCCTAATGCAACATGGCTGTGGGACTTTTCCAACTGCAG
Seq C2 exon
GCTCAAATGAAGGACTACCAGCGGGAGCTGGAAGAAGCCCGTGCATCCAGAGATGAGATCTTTGCACAGTCCAAAGAGAGTGAAAAGAAACTCAAAGGTCTCGAAGCAGAAATACTTCAGCTCCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001183:ENSGALT00000023397:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.463 A=NA C2=0.326
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(6.2=100)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(4.9=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:
GAGAGCTGGAGGCAGAGCT
R:
CTCCTGGAGCTGAAGTATTTCTG
Band lengths:
287-1703
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]