DreINT0008205 @ danRer10
Intron Retention
Gene
ENSDARG00000077920 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr19:44544787-44549206:-
Coord C1 exon
chr19:44548949-44549206
Coord A exon
chr19:44544853-44548948
Coord C2 exon
chr19:44544787-44544852
Length
4096 bp
Sequences
Splice sites
5' ss Seq
TAGGTGCGG
5' ss Score
5.42
3' ss Seq
TTGTGTTCTTTCTTTCCCAGCGG
3' ss Score
10.1
Exon sequences
Seq C1 exon
CCCACAGTTGTAAACAGCCGGAGAGTCCTCCCCATGTGGACGTTGTGGGAATGGATCTACCTTCCTATGGTTATACGCTCATCTACAGCTGTCAGAGCGGCTTCTTTCTGTCTGGTGGCTCTGAACACCGCGTCTGCAGATCTGACGGGACGTGGACCGGGAAGATGCCTGTGTGTCGAGGTAGCGAACACATCCCATTGTGCTTTAAAAAGCGTTCAGTCATTCAACTCAAACTTTGCACACATGAAGCAACTATAG
Seq A exon
GTGCGGGGAAAAAATTCAACCGCGGATCCTTAAACAGTTTTACATGCAATAATATAAAAATAAGGCCTTAATTAGTCTTAAATCCTCATTTCACAGGTCTGAAAAATGCAATCGAACCAACCCCATAAAGATTTTGTTTCCAATTTGAAATCTGCTTAAATCTTTTAAATCTCACAAAAATCTGAATAAAACAAAAAACCTTTTGAATATCGATATGAATAAAACAGTGTACTGTATGTGCAGGAGTTGACCATGATGACAGAGTTCGAATCCGGCGAAGAATGGTTTAGAAAGTGAGTAAAACAAGAACAGAAGCCACAAAATAAAGCAAACAAGTAAATAACAGGGTGAGAACATGGTATAATCTAAAAAACGTGGTAAAAATCAGGTAGCCATGAGGGCTTTTCTGTTCCTGGATTGCTTTTAAAATACTGTTGGTTGGGTTTTGGGAAGCTGGTCAATCGCTGCATTTGGAAAAAACTATCCTTAAGTTTAGGGAAGGCGGTGGGTGGTGGGATCGTCGGTCAATTAGTCATTCAGTCGAAAGCTGATGAATTTTCGCGAGAACAGCTTGCTCGAATGGCGCTCACAAGAGAAATTTGAGATCTCATAAAGTGTACACAGCAGCCTCTGTATTTGCGAAAACAAAAACAGCAAACAACATAGATCCTGGGACGTATTTTGCACTCTCCAGAAATGTATATAGGGGTACATTTTCAGAAGGAGTCTGGGTTGTTTGGGACGCATGCAACGCCAAAAAGCCCCAAAACCTTAAAAACAACAGGTGCATGAGAAACGGTTTGGCCTCCAGCATCTTATCCTAAGAATAAACTTTCGAACAGGCTCCTTTTTATATGTTCAGTTATCAATTTGTGTTTTATATAACATCTGCTATATAAAAGATCTTATTCATGACAGTACTAAAAACAAACAGCATGTGATTGTTCTAATCCCTCAGCAAAGGGTGTGTAAATTCATGAGCAGAGCTATAAAAGCTTTCAGTCTGTTCTGGAGTATCAGGCAGTTAGTTAAAGCAGACGGCTCTGCGTGTGAGTGTGTTGAGGTGGGGATCTGGAGCTCCGGCGTGAGGCCTGTGTGTGCTGCACTGCTGTGATTTTTATCTTCTGCAGCCCAGAGCTCTGCCATGCATGCGCACAGCTGTACACTTCAGGCTTTCAGTAATTACTGCACATAAACAGATGTGATTGTGTATAAAAAAACACTCCAGAGCGGTCGACTGAGAGCTGTGATGGGGCTCTGTTTCCTTCTCTCTCTTTCTCTTTTTTGTGCTGCCACTAATGTATGTTATAAATAGCATCTGTTTAAACAGTACTACACTACCTGACAAAAGTCTTGTTGTCGATCCCAGTTTTAAGAGCAGCATATAATAACTTGACTTCTAGTTGATCATTTGGGAAAGTGTCTGAAGGTAGATTTGCATCCCAGTCATCACAAATACTGCAGAAGACCTATTGGAACCCGCATAGACCCAAGATTCTCACTGAAATCAGTCAAGTTTGGCTGGTTTGGGGTTACAATGAGTATGGGGTGTGCGAGAGATCTGCAGAGTGGATGGCAACATCAACAGCCTGAGGTATCAAGACATTTGTGCTGCCCATTACATTACAAACCACAGGAGAGGGCAAATTCTTCAGCAGGATAGCGCTCCTTCTCATACTTCAGCCTCCACATCAAAGTTCCTTTAAGGAAAGAAGGTCAAGGTGCTCTGAGATTGGTCAGCCCAGTCACCAGACATGAACATTATTGAGGCATTGAAGATGAATCCAAAGAATCTTGATGAGCTCTGGGAGTCCTGCAGGAATGCTTTCTTCTCTTTATTTCTTCAGGAATGCTTAATAAAGATGACTTTATTAATAAGTGATTTGAGTCAGACTTTTCTGTCCTAATTAAATAATTACTTTTAATTAAAGTCGCATTTTAGCATTTATAGAATTACAGTTACTATCTATTTTGCAGATTATAAGCAATCTTGGTGGTGAGGGAAAAAAGAAAACTTTATAACAAGATGTAACCTGGATAACCTAGGCTACTAATGAAAAGTGAAAGTGATGTGAAAAACGAGAAAGAAAGCAAGGAAAATTAGCCATTTAATCATTCTATGTATTAAAGTCATGGGCCCTTTAAGAGTCTACGGGAGAGCGAGCCGAACTCCACCGACGCACCATAATTGGTCAAGAGAGGAAGTTATGATTGGAAAAGTTACGGTTGAGAGAGTTACAGTTTTGAATATTAAATGATGCAGATAGACAATCGAGAGGGAGACGAGACAGCAGCAGAAAGAGATCCAGAGCCCTTCCACATTTAGTCAGTGATTTGAAACAGATTTAACAAAGATAAAGTTATTGAAATGAGGCAACAGCACCAAAAACTGTCGTCGTATTAAGAAACCATCACTGAATAGAGGATTTGTGGTCGAACTGAGATTTGGAGCGAGTAACTGTTGTCGGCAGGCATCTGAGTGAGAAGGGGATGTGGCGGAGTTTGTAAGCTGATACTGACGCGGAAATTGTGAAAACGACATAATTAAGTTGTTATTTCGACATAATAAAGTCAATATTTCGACATAATAAAGTCGTTGTTTCAACATAATTAAGTTGTATTTCGACTCTGTAAGCCACTAGATGGCAGAATAGGACTAGCAGTAGATTAATGAGCATGCATTAAGAAAAATCTTTAATAAATGACAAAATAATTGCAAATAAATTACAAAATATAGATTTTTTTTTTAATTCAAGATACAGCGCTATTTTATACATTATTTCTGTTAAGTGACGAGACTTTTGTCTAAGTTAAGTCAGACCTTACTGTCCTAATTAAATAATTAAAAATCAAGGCCTGATTATATTTTTTTTTTTGGGGGGGTAAAATAAGCGTAATCTAGAGGCCTTTGTCTTTGAAATCAAGGCATGATGAACTAGAAGTCAAGTTATTATTTGTTGTTCCTAAAACTTGGATAGGCGACAAGACTTTTGTCAGGTAGTGCCATATCTAACGAATGAATACTGGTTTCCAAGACGTAAAAACTAGTATGTAATGAATTAATAGTAGAAACTTTTTTTAAATGTACTAGTCCCTAAAATATAAGCATTAGTAGATGGTGAATAAGCATTAGTACTTTATAGAAAATACATTAGTATCTTTTAAAAAAATAATAATAATAAAAAAAAAAAATATATATATATATATATATATATATATATATATACAGTTGAAATCAGAATTATTAGCACCCCTGAATTATTAGCACCCTTGTTTATTAGTTTCCCCAATTTCTGTTTAAAGGAAAGAAGATTTTTTTCAACACATTTATTAGCATGATAGTTTTAATAACTCACCCCTAATAACTGATTTATTTTATCTTTGCCATGATGACAGTAAATAACATTTGACTAGATATTTTTCAAGACACTTCTATACAGCTTAAAGTGACATTTAAAGGCTTAACTAGGTTAAATAGGTTAATTAATCAGGTTAGGGTAATTAGGCAAGTTAAACCATAATGATGGTTTGTTTTGTAGACTATCAGGGAAAAATATAGCTTAAACGGGCTAATAATTGTGTCCTTAAAATTGCTTTAAAAAAATAAAAACTGCTTTTTTTATTGTAGCGAAATAAAAATAAAATAAGGCTTTCTCCAGAAGAAAAAATATTATTAGACATCCTGTGAAAATTTCCTTGCTCTGTTAAACATCATTTGGGAAATATTTAAAAAACAAAATAAAAATCAAGGGGGGCTTATAATTCTGACTTTAAGTATACATATATATAAATATATATATATATATATATATATATATATATATATGTATATATGCTAGTATGTATAATAGAGGTTAAACGGTTTGCCTGCTTCAGTGTTTTCTGTTATACTCCTTGATACTGTATGTTGACCGTGTCTTTCCTCTTGTGTCTGCGGTCACTGAATTTTCCTTTGTGAAAGCAGAAAAAAAGAGACCCATTGTTGCCCCAGGATGTTACTCTACGCCTGAAATGATAAAAGTGATGCCAATTTGATCTGTCAATCTTTTTTTTTTAAACAAGTGGCTTCATTCATTTTGTGTTCTTTCTTTCCCAG
Seq C2 exon
CGGGCTCCAAGCTCTCCGAAAAGCCTATTAAACCGGTCCCAGGAACGCCGAGTCCGAAGCTAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077920:ENSDART00000108507:61
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.609
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=64.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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]