DreINT0052599 @ danRer10
Intron Retention
Gene
ENSDARG00000001559 | csmd2
Description
CUB and Sushi multiple domains 2 [Source:ZFIN;Acc:ZDB-GENE-030616-39]
Coordinates
chr19:36763918-36767659:-
Coord C1 exon
chr19:36767471-36767659
Coord A exon
chr19:36764088-36767470
Coord C2 exon
chr19:36763918-36764087
Length
3383 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
ACTCTCCTTCTTTTCTGCAGCTG
3' ss Score
10.77
Exon sequences
Seq C1 exon
AATATGACCTGGAGCCTTGCGAGGATCCTGGGATCCCCCCCTTCAGCACTCGTAAGGGTCTGCAGTTTGGGGTTGGGGATGCGCTCATCTTCTCCTGTTTTCCGGGGTATCGTCTTGAGGGGCCTGCGAGGGTGGTGTGTTTAGGGGGGCGTCGGAGGGTCTGGAGTTCCCCTCTGCCAAGGTGTGTTG
Seq A exon
GTAGGTGGTCACATGCTTTTCATTTTGCTTTCTTATAACATATTTTCCCCCATGTTCTCAGATACACTCTAGACAATTCTGAGTGCACTAAAACTTCAAATATCTGAATATAAGGCTGAAGTCTCATTATAACAATAGTGTACAACGCCTTAGTAATAGTCAGAAATAAAAAGGGCACCACTTTATAAAAAAAAAAGTGGATTTACATTAAAAAATACATGTTGTCTATTTAGTTCATATTGTATTAATAATAGTGCTGGAAAACTATTAATTACATCCAAAATAGTTACATTACTTTGTAATTACATTACAAAATAGTTACAAAATAAAAATTTCACAATTTATAAAATATAAGTCTATGTACTATATATTTACTGTACATATTTGTACTGTATATGAAATTATATATTTAAAATGTGTTCAAAATGTTTATTTGTGTGGTGGCACTGTGGCTCAGTTGCCTCTGTTGCCTCTCGCTTGCATCTCAGTAGCACTGTTGCCTCTCAGCAAGCAGGTCACTGGGTTGAGTCCTAGCCGGGTCAGATAGCATTTCAGTGTGTCATTTCAGAATAGTTGCAAGTTCATTTCGCTGACCATATTTACACATTTTAATGTCAGGAAATTTTTGTTTTGCTTCTATGTATTTGTGTGTATTTATATATATAAATATGTAGTTGCAAAACAAACTTTTATTTTGTATGTGAAGAGTCAAAATAATGATTGCCAAGTACTGATTGCCAGTTATAGTGCTATTTAGGTGGGATACATGCAAAGTTTAGGACAGGTTTGATGGTATAAGTGTAAGGGATCATGATTTTAGCAAACAAAAATCATTATAAATCTACAAAATGTAATCTAATACCTACAGGTATGTCTGTGAATAAAAGTACAATCATGTATTCATAAACAATAAGTACTTTTGATCGTCATTTAAGGAAATAAATCTGAACTAGCACAAACCCCAAATTCTCTCCAGTGCTTAATCAACATTAATGCATTTGTACACATCTGCATATACGTATCTCGGAGGCCAGGCTTCTCAAATAATTTTGTGCTGGAATAACCTAGCTGCTAAATTTAGAATGCAATTTGTTAACATTATGATTTTGACGCTCCACTTAAAGCAAGTAATTAGGTATTATGTTTTTACTGCAGCAATATTGGGCTTATCCTTGCTTCATGTTTGTTTACGAGTCCTGTAAAACTAGGTCAGCTCATATCTTAACGTGTTTGTCAATATGATTATATTTAAATGTATTTAAATAAATAACATATGGCTAACTTCACGCAGGGTCTGTTGGGTCCGTCATGTTAGTTAAAACTCCTAATAAGTTCTTCCATATGCTTTTAAAAACAAAAATGATGCTGTTTGTTGACTTTTAAGTATATATTTTTAGCAAATCTTAAAATTATTACATTGATATTTTGCTCACATTTACAGTGCATCTGGAAAGTGGTTATAGCGCTTCACTTTTTCCACATGTTTTTTATGTTACAGACTCATTTCAAAATGGATAAAAAAGTTTTTTGGGGTTTTTACAAATTTCTTTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAAAGCTGAAAAATCACAAGTACATAAGAATCTACAGCCTTTGCTGTGAAACTCTAAATTGAGCTCAGGTACATTCTGTTTCCTCTGATCATTCTTGAGATGTTTCAGCAGCTTAATTGGAGTTCACCTGTGGTCAATTCAGTTGATTGGATGTGATTTGAAAAGGCATACACCTGTCTAAATAAGATCAGTGCATGTAAAACCATAAACCAAGCATGAAGACAAAGGAATTGTCTGTAGATCTCCGAGAGAGGATTGTCTCAAGGGAAAAGGCTGGGGAAGGTTACAGAAAAAATTCTGCTGCTTTGAGAGTTATAATGAGCACAGTGGTCTCCATCATCCATAAGTGAAAGGTTTTTGGAACCACCAGGACTTTTCCTAGAGCTGGCCGGCCATCTAAGCTGAGTGATCTGGGAAGAAGGGCCTAAGTCAGAGAGGTGATCAGTAACCCAATGGTCAATCTGTCTGAACTGCAGCGTTCTTCTGTGGAGAGCGAAGCACCTTACAGCAGGACAATCATCTCTGCAGCAATCCACCAATCAGTCCTGTGTGGTAGAGTGGCCAGACGGAAGCTACTCCTTAGTATACGGCTCATATCAGCCCGCCTGGAATTTGCCAAAGGACATCTGGAGGACTCTCAGACCATAAGAAACACAATTCTCTGGTCTGATAATACTAAAATGGAACTCCTTGAAGTGAATGTCAGGCATTATGTTTGGAGAAAACCAGGCACCGCTCATCATCAGGCTAGTAACATAGAGTGAAGCATGGTGGTGGCAGCATCATGCTGTGGGGATGTTTTTCAGCAGCAGGAACTGGAAGACTAGTCAGGATAGAGAGAAAGATGAATGCAGCAGTGGCATCCTGAATGAAAATCTGCTTTACGGTGCTCTAGACCTCAGACTGGGGCGATGGTTCATCTTCCAGCAGGACTATGACCCAAAGCACACCGCCAAAATATCAATGGAGTGGCCAGACTTAAATCCTATTGAACATCTCTGGAGGGATCTGAAAATGGCTGAACACTGTTGCTTCCCCTCCAACCTGATAGAACTTTAGTGGTACTGCAAAAGAGGAATGGGCAAATATTCCCAAATACAGGTGTGCCAAGCTTGTGGCATCATATTCAAAAAGACTTGAGGCTGTAATTGCTGCCAAAGGTGCAAAGTAGCAAAGGCTGTCAATACATATGATTTTTCAGGTTTTTTATTTTTTAATAAATTTGCAACAATTTCAAAAATATTTTTCACATTGTCATTATGGGGTATTGTGTGTAGAATTTTGAAGAAATAAATTAAATAAATCCATTTTGGAATGAGGCTGTAACATAAAAAATGTGGAAAAAGTGAAGCGCTCTGAATACTTTTCGGATGCACTGTAGTTGGAGCATTTAATACACTCAATTGTTTGGGTAATTGTCTAAAATGTCACAAAAATAATTGACTTTACTTCTAGAATTGCAGTTTTGATACAATCACAGTCACTATAATAGTATTAATCATTTGCATTTACATGAGAGCTTCCGCATAAGCATAATCAATGTGTGAGAACGTTTATTTGTAATTCAAATTAAAATTACAATAAATACTTTGTGTGGTTTTATATCCAATCAGAATGTGGCACATGAATTGGACTCATTGAGAAACACGTTGCCCCTTGTCTGCCTGCATGAGTGTATAACATGTACTGTGTTTCTACTGAGATAATGGTTAGTTCGTCGGGTAATTTGACTCTCCTTCTTTTCTGCAG
Seq C2 exon
CTGAATGTGGATCATCTGTAACTGGAAAACAAGGTGTTTTACTCTCTCCTAATTACCCTGGTTACTATGGTAATGACCATGAGTGCATCTACTCCATTCAAACTCAACCTGGTAAAGGGATCCAGCTCAGAGCTCGTGATTTCCACCTGGAGGAAGACGACATGCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001559:ENSDART00000132471:21
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=0.018
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=87.5)
A:
NA
C2:
PF0043115=CUB=PU(50.9=94.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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]