GgaINT0136545 @ galGal3
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
NA
Coordinates
chr23:5162505-5164361:+
Coord C1 exon
chr23:5162505-5162578
Coord A exon
chr23:5162579-5164243
Coord C2 exon
chr23:5164244-5164361
Length
1665 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
CAGTGTTTTGTCTCCTGTGGAAA
3' ss Score
1.06
Exon sequences
Seq C1 exon
ACCCAACCCTGACGACGTGTGCAGACCCCGGCGTGCCGCTCTATGGGATGCAGAACAACTCGCAGGGCTACCAG
Seq A exon
GTACTGCTGGGGCTGCCATGGGTGGAGGGCATCGCGTGGTGCCGTGCGTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATTCTGGGTTTTAATGTATTATTCTTAGCTTGTAATTAATCCTGAGACAATCCAAACCTGACTTGTGTAAGGGCTGCCCATGTGGGAGCTGCACACCGATGGGATGCGGTGGTGGCTGCAGGGAGCACTGGGGAAGGTGTGCCCTCAATGTGGTGCCCTGGGGAAGGGGCACTGCACAGTCCTGCCATGCTGGGGAGAAAGGGAGGATGCTCAAAGCCCTGCCTGGCAGTTTTATTCCAGCTTGTTCAAGTTTAACAGCAAATCCTGTTGCAGTAGCAGAGCTCACAGCCATGCAGTGACACATCTGGTCTGTCTGGAGCAGGGATTGAGCTCTGCTGTCCTGTTGAATCCAAAAACAAAGAAGTGAGCAGTCTGCAGACAGTGAACGCACCTCGGAAGTGTCAAGGAGTCACCTCCCAGTTTTTGTGATCCTTTTTGCTGTTTGCAATCCAAGTTGGCATTCATTCTATGGCTGTGGGCTGTTTGTTGATGGTAATTATTTTGAATGTCCCTTTCGGCAAAAACGTTGAGTGTTGCTAAATCTGATGCTAGCTTTGGGTGCTTTCAAGACAGCAGCTTTACTTATCACTGAATGGAGGAACCCTCTGCCCAATTCGCAGCTGCTCTGGGAGCTGTGTGGCACCAGGCTCTGGCAGGATGGTGAGCGCAGGAAGAAGGCAACCCACCTTTTCACTGCATAGAAGGTGGAAAATGCTAGAAGTACTCTTGCACTGTAAGCACAGGTGAATTACGTTGCAAGCTCAGTGTTTTGTCTCCTGTGG
Seq C2 exon
AAACAGGTGGGAAGCATGATTTTCTTCAAGTGCCAGAAGGGCTACCTGCTGCAGGGCTCCACCACCAGGACCTGCCTGCCCAACCTGACGTGGAGCGGCGTGCAGCCCGACTGCGTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000033174:67
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:
PF0008415=Sushi=PU(31.6=72.0)
A:
NA
C2:
PF0008415=Sushi=PD(64.9=92.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]