GgaINT0136551 @ galGal3
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
NA
Coordinates
chr23:5169439-5170023:+
Coord C1 exon
chr23:5169439-5169526
Coord A exon
chr23:5169527-5169884
Coord C2 exon
chr23:5169885-5170023
Length
358 bp
Sequences
Splice sites
5' ss Seq
TGGGTAACC
5' ss Score
3.95
3' ss Seq
TTACTTTTGCTGTGTTTCAGACG
3' ss Score
10.04
Exon sequences
Seq C1 exon
GTCTCATCAGAGTCGTCCAGTGGCACGTTTGTGTACCAGGGCTTTGTGCGTGGCAAAGGGTTCGGGCAGTTTGGTCTTCAGAGACTGG
Seq A exon
GTAACCTTCCTCTGACTACTAGTTCTTGCCTTAATTGCTGACAGCTGCATTGTGGTGGCAGTGGAGGTTATGGAGCAGGAAACGTTTCTACTGTCCCTGGCATTAATTTTCAACCCTGCTGGGCCAAATCAGTAAGGTTAATCTGTTTACATCTGTTTTTAATCACGCTCCTAAATAAATGATGATGAACTAAGCTAGGCTAGACCTCCAAGCCATTCTTCCTGCAAGTCGGAAGCTTTTGATTACCTTTCACAGCACCACTTCTAACCCCGATGTTGCGTTGCTGAAGATGTAACTCAAGCAAACCCCACTTCCTGCAGTGCTGCTTTGAAATGTGGTTACTTTTGCTGTGTTTCAG
Seq C2 exon
ACGTCAGCATGATGGAAAACGATCCGGAATCGATCGGACACCATTTTGCATCCAACAGCAGTTCTGTGGCAGCTGCCATTCTTGTGCCTTTCATAGCCCTGATTATTGCAGGGTTTGTGCTTTATCTCTACAAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000033174:73
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:
NO
A:
NA
C2:
NO
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:
CTCATCAGAGTCGTCCAGTGG
R:
TGTTTGTAGAGATAAAGCACAAACCC
Band lengths:
222-580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]