GgaINT0102990 @ galGal4
Intron Retention
Gene
ENSGALG00000016111 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr2:132865703-132867426:-
Coord C1 exon
chr2:132867241-132867426
Coord A exon
chr2:132865898-132867240
Coord C2 exon
chr2:132865703-132865897
Length
1343 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
GTGTTTTTGTCATTCGGAAGTTG
3' ss Score
2.61
Exon sequences
Seq C1 exon
CGATATCTTGTGGAATTCCTAAAGCTCCAGTAAATGGTGGGATATTAACTACAGATTACTTAGTTGGCACCCGTGTTACTTACTTTTGCAATGATGGGTACAGACTATCTTCCAAGGAACTTACTACTGCAGCCTGCCAGCCAGATGGTACCTGGAGCAATCACAATAAAACACCTCGCTGTGTAG
Seq A exon
GTAAGTAACATGCAAAAAAAAAATCTAGTAAGAATGTGACTGTACATTATGTTTATTTATCAGAAGTAGAAAACACCATGTCACTTAAGCTTTCAGCTTTCAGGATACTTTATGTGTAATTGCTGCTATTACATTATTGGGAAGTATATATTTGAAATGTGTATTTGAGAATATACTGAAATATTCTATGGTGGTGGAATAAATACCCTACAGATTACTGAACATATTCAAGTGATAATTAATTTTCTGATAAATCAAAATTAATGGTTGCAGTGGTTTATATAAAAATCAGCTCTACAGTGAGAACTGAAATGTTTATATACTGTTCATAAACTCTATTTACTATCTGTAATTCCAAAGTATCTGGTATTCTGGGATGCTTCTTTGAAACTACTGCTGATTATTTATATCTAGCCTATCATTATAACCCTACACTATCTAAATTCTGGGAAACGTCACTGAAGAGAAAATGCCTGCTCAGTTCTAAGAAGTGGATAACTTCAAAGTGGATATGAAAATCCAGGTGACTATAAGAGTGATATAGCAATACAGAAATGGCTCACGCAAATTGAGATTATTTCACCCAATGAATTTTAGAAACAGGAAGAAAACATACTCTGGATTAATTTGCAAGGGCTTTCCCTTTTTCTTTTTTGTCTTCTTCCTGTAAATGCATTACCTCATGCCTTTTCCTCTGCCTAAAGAAACAAAGTTAACAGAGTGAAAGAAAGCAATATCCACCAAAGATTTTCCTCTGTGTCTTTTCTTTTGATCAAGGGAAAATTTTACGCTCCCTAACTTTTCTATTAGATTAGGGTAGTAGAAGAATATTTTTTCACTTGCTTTTGGAGGAGATACACGTAGAATTCGGACATGAGATAAAAGACATGTTGCTGCTGAAATCCCTTTCTTGATGTGAATATTATTTAACATGTCACTGCTGTGCAGCCTCTCCAAGTATTTAAGGTCTTATATAGTTCATCTGTGTAAAAAATAATTCCAATGTTTAAGTTTCCCTGGTATTTTAATAAAGGTTTTGATATCTGATATAACATGTCATATCAATTTCCTAACTATAAATCTATAATGAATTCAATTCTGGCATAGATTTTATCTACACCAACTGTGTAGCCCAGCATATTCTAGTCACTGCTCTAAGTCACTAATCATCAATAATAAATGAGAGAAGTGTAAGCTGCTAACCAACGGAACTTTAAATACAGCATTATTCTTCAAACGTTATGTTGCCATGTTTAACCTTTATTTCTAAATTAATAACAACAGATTTTTGTAATTTGCTTGTACTGAACTACAAATAACTATGTGTTTTTGTCATTCGGAAG
Seq C2 exon
TTGTTACATGTCCAAGCATCAATTCTTTTACACTGGAGCATGGAAGATGGAAAATAGTGAATGGCTCACATTATGAGTATAAAACAAAAGTAGTTTTCAGCTGCGATCCAGGGTATTATGGCTTGGGACCAGCATCTATTGAGTGTCTTGCTAATGGCACCTGGAGCTGGAGAAATGAGAGACCTTACTGCCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016111:ENSGALT00000025958:51
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=WD(100=92.1)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGGAATTCCTAAAGCTCCAGT
R:
CATTTCTCCAGCTCCAGGTGC
Band lengths:
355-1698
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]