DreINT0008166 @ danRer10
Intron Retention
Gene
ENSDARG00000077920 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr19:44831783-44836199:-
Coord C1 exon
chr19:44836012-44836199
Coord A exon
chr19:44831978-44836011
Coord C2 exon
chr19:44831783-44831977
Length
4034 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
CTTCTCTCCATCTCGCACAGCTA
3' ss Score
7.23
Exon sequences
Seq C1 exon
CTTCAGCATCGAGCCCAACTACGACTTCTTGTACATCTATGATGGAGCGGACAGCAATAGCCCTCTGATCGGGAGCTTTCAGGACAGCAAACTTCCAGAGCGGATAGAGAGCAGCTCCAACACCATGTACCTGGCCTTTCGCAGCGATGGATCTGTCAGCTACACTGGATTCCACCTGGAGTACAAAG
Seq A exon
GTAAAGCCGTCCAGTCCAAAACACCAATTATAGATACAGCTGCATTACACATACTGAATATAGATGGTGTCAAAATGATTATCCCTTATATGATGTTTTAGAAGTTTTTGACATTCTCACCATATTGACATATATTTAGGAACTCATTTCAGATTTGCAAAGATACAGACAGCGCCCTCTAGTGGATGTGTCATCTGAAATGTCCAACACAACATAGCTGAAGCAAATTGTAGACCTGGGCCCGGTTTTTCAAAAGTAATCCACTAGGATTTTGGATAAGGGATTGGATCAAATCTTGAAAATGGGTTTTTGAAAAGAAAAAACGGATTACCTAATCGGATTAGATCACGTAATCTAATCTTGGTTTTGATCCAGATCAAACCTTTAGTTTGGGTTTTTCAGACCTTTTTTGTAGGATTTGGATCACTTTGATCCAAAAAACGTGGATTAAACTGATCCCACCAAAAAGGTGGATTTAGTGTGGATTTCATGCCCAAAATGTAATAAAAACTTAAAAATTTTATTAAATAATACTATTTTTGGATTACACAGTATCTTACGAGATATACTATTAATTCATAAGGTTTTAATTTTATTTGTTCATCCATCAGGCTGTAGTGATTATTGGCTTTAACGTATTCAGCCTTTCAGTATAGGCCTACAGCAAAGTAAAAAATAGCTTGGCCTCATAAAATAATCCCCCAAACAGCTGTCAAAATTTACCAAAAACAATACATTTTATTGTCAATAATTGATATCTATATTCATCACAATGGAAAATATTTTTGTTTTTAGAATATTTATTAGTGATGCATGCAATAATTACAGAATAACAAAAAAAAAAGTGCAAAGAATGGCAATGACTGATTTTAGAAATCTCTTTCAACAATTGCAAAAAGAGGCAGAAAGGGCAGAAGCACAGCTTCATCTGGCAGAGGAACAACTGACTCTGACCAAACTGCAGCAAACCAATTCATTCACCATATTGACATACCCTTAGTAAGTAATTTTAGATTTACATAGATCTAGACAGCACCCTCTAGTGGACGTGTCATCTGAAACGTACAGCAAAACGTAGCTGGAGCAAATTGTATGCAGGGACGTGTATTTTTAATGAGCCTGGGTTGTAATTTTCAGTGTGAATAAACTATCTTTGCTTAACATCTGAATAGAATAGTGCATTAGTATGCAAATTGGGCAGTTCCTGTTTACCAAAAGAAAGTAGTCAGAACTGCCTAAATCAAGTTAGCAATTAGTAATTCCAGACATTTGCTCAATGCCAGTTTTTGGACTTTGTTGGCTGCCTAGAAACAGCATCTATTTCACCCTCAGATACTGTAGTTTTGTTGAGAACATGCTGTATTTTCGTGCTGCACAAGCAAATCCTCTCGCATGAGTTTTTAATGGATGAGGAGCCATGCTTGAGTTGAAATGATAAGACAGATGCCATTGTTGTGGTTTGTATCACTTGTTACGTTCACACAGACACTTTTTAGCACAATTAAATCATTCCCACTGATTAATTTCAAGCATTGTGTTAACATGAGTGTAAATAAAGTCATGCGGTTGACTTACTGTACACGTCTCAAGCTTCAGATGGGATTTGATCTACTGACATGCACACGCTGCATGAAGATAACGTTTCCTGCTGTTTGAGCATCCTCCTGTTTCTTTTCTTTGTTTTAATATTTATCAGTTTCTAGAGATGAGAAGTGTATAATACTTCATGCAGCAGTGTGTTTTTATCAAACTGTAAAAATGCCACGTCCCATGAACAAAAGGCAGTATATGGATGAAAGTCTGAAGAAATCTTTCCTACTGCACGCAAACTTCACCAAGCAGTGAAAGAACTTTGAACTTTACTCGACAGACATTTTTGATCTGTCATCAAGTCATTTCTACTATTCTTTTAAAAGCCATTCTTCAACGTCATGCTCAAAACGTTCCTGTTTCACCATTTAATCTGATGTCATATTGATTTGATTAGAAAAAAAGTTTTATTCTGTTTTACATGGTTGCAAATAAATTACTTTGGTCCATGTAAATGCAGCTACTGTGTTTCCAAATGATGAGGAAGCTTTAACAAAGGGTTGCCAAATCTGCATAGAAAACCCTTCAATTTCTAAAGCTATCCCATAATTATCAACATAGGTTTTCATTGCAGGAGGACGGTCCTCCAATATCAAAAGAGTTATTTGTCCGTGTAGACTCCAATCATTTTCCAGGAGATCTTCTTTGGGTAAAATTGCATTTTTCGTGGTCCGTCTTGGCTGAATTTGCATTTTTATCCAATCAGTTGAATCTGTAGACTGAAAAAAAAAAAAAAAAATTGTAAAACTAGCTCAATTGCTAATAAAAACTGAGGACTTGGCAACACTTGCCTCTGAAACTAAAACTCTGATATGGGCACTTGGTTTGAACCAATCAACAAGATTTGCTGTTTTACTAATCAGAGAAGAGTGTGTTCATGGAGAGGAAGAGTTTATAGAAACTGAACTCTTGAACCAACCATTTAAAGCTTGTTGAGAAAAGAGATGATCCTGCAGTGGATTTAATGATATCTATTTTTTTTTCTAAATGAAATTTTAATTGGATTTGACTAATTCTATTTGATTCTAATTAATTCTATTCGACATGGTTACACAAGTGACAAATGGATTGTTTTGGTCCATGTTAATGCAGCTACTGTTTTATTTTCAATTGCTGAGAATCGTGTACACTGGGGTGCCAAATCTGCATAAAAACCCTTAAATTTCTAAAACTAGACCATAAGTATTAACATAAGTCTTAATTGCAGGAGGACGGTCCTCCATTGTCAAAAGTGTGGTTGTCCATGTAGGGTCAAATAATTTTCCAGGAGATCTTATGCCCTTGGTTGAACCTGTAGACTGAAAAAAAAAACCAAATTGTTAAAAAAAAAAAAAAAGTGAGCATTTGGCAACACTTGCCTCTGATGCTAGATTTCTGATATGGTAATGGGCATTTGGTTTGAACCAATCAACAAGATGGGCTGTTTGACAGGGTTTATAGGAACAAAGGCAGTGTTTATGGGAACAAAACCCTTGAAGCAACCATATAAAGCACTTCAAGAAGAACTGATCCTGCAGTAGAATTTATAAGAAAATATTTTTTCCAAATTTTTTATTGATTTTGAACGATTCTATTCCTTCGTAATTCATTTATTTGACATAGTTACACAAGTGACAAATAGATTATTTTGGTCTATGTAAATGCCGCTATACTCTGTTTCCAAATTCTGAGGATGCTTGTGCACAGGGTTGCCAAATCTGCATATCAGATTCTAAAAGCAGCCAATATGTATCAAAATAATGTTCCATTGCAGGAGGAAGTTCCTCCATTGCAAAACTGTGGTGGTCCATTTTGGGACAAATAATTTTCCCGGAGAATTTTTAATTTTTTATTTTTTAAATTATTTTATTTATTTAATTATTTATTTACTTATTTTTTGAGTTTGAACCTATGTTGAGCCTGCAGTCTCAAGAAATATGACAACAGTGTAAAACAAACCCAACTGCAAAACAAAATGAGGATTTGGCAACACTTGCATCTGAAGCTATGGCAATGGGCTTTTTACTTAAACAAAAAAAAGAACAAAAAAACAGGATGGGCTGTTTAACCACTCAGAGAAGAGTAGTAAGAGGTTTCATCTTCTTTCCACTCATTTAAAGCACTTTGACAAAAGCTCTTATCCTGCAATAGATTTTATGGGAAAATATATAGTTTTGGACCATGGATTTGTGTTACTGTCTTATAGCGGCTTTCAAAACTAAATTAAAAACCTTTAAAATAACAAAATAGATACAGTTTTAGAAGTTTAGAAGACAGTTCATAGTTCATGACACTAACAATCTTTAAAAGTCCTCCCAAAAACGTATTTCTCCCAAAAGAAAAATGTTTATGTTGTAAAAGTAATGTCATTTTCAGCCAGTAACCATCCATCCTGCAAGCTACGATATGCCTAACGTGATTTTCCACCCTTGCTTTTTCCTGCACCTTCTCTCCATCTCGCACAG
Seq C2 exon
CTAAGCTGAGGGAGTCATGCTTTGATCCCGGTAATGTGATGAATGGCACTCGGTTGGGCAGCGACTACAAGCTGGGCTCCACTGTGACCTTCTACTGTGAGGCGGGCTACGTCCTCCAGGGCTACTCCACGCTTACCTGCATTATGGGTGATGATGGCAGGCCTGGCTGGAACAGGGGACTGCCCAGCTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077920:ENSDART00000108507:26
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:
PF0043115=CUB=PD(57.5=96.8),PF0008415=Sushi=PU(14.5=17.5)
A:
NA
C2:
PF0008415=Sushi=PD(84.2=97.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]