RnoINT0042647 @ rn6
Intron Retention
Gene
ENSRNOG00000007057 | Csmd2
Description
CUB and Sushi multiple domains 2 [Source:RGD Symbol;Acc:1565728]
Coordinates
chr5:146658237-146661946:+
Coord C1 exon
chr5:146658237-146658353
Coord A exon
chr5:146658354-146661736
Coord C2 exon
chr5:146661737-146661946
Length
3383 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TGCCTCTGTCCTCCTCCCAGGTG
3' ss Score
11.61
Exon sequences
Seq C1 exon
CGCAATGCGGGGGAGCAGTGGAAGAGATGGAAGGGGTGATCCTGAGCCCCGGTTTCCCAGGCAACTACCCCAGTAACATGGACTGTTCCTGGAAGATCTCGCTGCCTGTGGGCTTTG
Seq A exon
GTGAGTCTGCAGCCTCCAGGGAGACAAGAGCCGAGCCCAAGCCTAGATTAAACCAGCTGCACACCCCAGCGTAAACTCAGCCCAGCGTAAGCTCAGCCCAGCACAAGCTCAGCCCAGCACAAGCTCAGCCCAGCACTGTCCCTCCTAGGCTTTATCCACTGCTATCTGGGGCAGCCCTGGGGAATGGCAGAGTTGAAGTGATGGGGGAGAAAGGTTAGAGGTTACCATAATTTGAGTCCTGAACTAAATGCAGGGGTATAGAATCAGAAACTCAACTGGAGATGGAGCTGAGGGAATAGAGAAGTAGAGCGTTTGCCTTTGGAAGGCACGAGGTTCCATCTCCAGGACTATTAAAAAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGGAAAAGAAGAAGAAGAGGAGGAGGAGGAAGAGGAGGAGGAGGAGGAGGAGGAGGAGAAGAAGAAAAGAAATTACCTAGAATAAAAGAAAAGGAAATCCATTTTGCTGAGTCCAGACTTCAAGTTGTGCTTTTAACTCCCCTGTCCCATTCATCATCCTAATTAAATTGAGCCAAGGTCAATATGAAATTGAGTTGGCGTTCTTCGTGGATACATTCTAGCTGGCCTAGAGACTGAGAGAGGGAACTGGAATATTCCAGGCATGGGGGCTGTTGGCTGGGAAGGACATTAGTCTAGGTGCAGATTTTAATTGCTGGCAGTTCGTATGGCATGTTCTGGCAATATGGCTTAACCCTGGTTACCTGCGCCAAAGAGACTGGGCTTCGTGCCGACAAGGAACTGAAGGGTTGTACGCAGGGATCGTTTTGCCCAAATTCCGCTTTGTCCCTAGGAAAAGAACTCTCCAGGGGATTCCTCTTTTTATCCATTTGTATCTCCCTAATTAACTCTACAGGGTAATGGGTTTCACTGTGACACATAAAACGTGTGGATGACCACCATACCCCATGGAGTGTTCCCCTACCCCGCCTCCTTTTAAAGGCACAGGCTCGGAACCTCTCAGCCTGGAGACTGCTCTCTTCCTTAATTAATTAATTTATTCAGATTACATCCTGATAACCCTCATTCCCCCGCTAGCCACCTTCTCTTCTCCTCTAAGAAGGGGGAGACTCCCCGGGTACCAGCACACCCGGGCACATTAAGTTGCAGCAGGACTAGGCACATCCTCTCCCACTGAGGCCAGACACGTCAGCCCAGCTAGGGGAAGGGGATCCAAAGGGAGGCAACAGAGTCCGAGTCAGCCCCACCCCTGCACTTGTTAGGAGACCCCCACAGAAACCATACTGCTTATGTGTAGGGGACCTAGGTCCAGCACATACATGCTCTTTGGTTGGTGGTCCTGTCTCTGTGAGCCCTCTAGGGTCTAGATCAGTTGGTTCTGTAGGTCTTCTTGTGGTGTCCTTGGCTCTGTCCGACTCCCTCAGTTCTATCCTCCACTCTTCGCCAGGAGTCCCCGAGCTCCCTCTAATGTTTGGTCGAGGGTCTCTACGTCCGTTTCCATCTCCTGCTGGATGATCCCTCTCAGAGGATAGTTACGGTCAACTCCCGTCTGCAAGCACAGCAGAGCATCGTTAATAGTGTCAGGAGTGGGCTCTCAGACAGTAGGATGACCCTCAAAGGCTAGAGTCTAGTGTCTAGGACCATCTCCTAAAGGAAACTGGGAAAAGCGAAGACGGCTTTGGCAGCCTTGATGGAGTCTGGATTGAGACACTAGGCAAAGTGGACCAGAGTTCCCACTGCTCTGTCTTCAAGCTTGGGACGGAAGTTTAAATGGGTGGCTGCCCTCTGTGAGCCTTTGTGTTCAGCCACAACAGCACTCTGTCCCTTAGTCCTACGTCTGCATTCCAGCTCTTGGCAGTGAGACTGTTGCAGGTCCAGTGGTGTACCAGGGTCTCTTGCTTTCAAGTGGACTCCAGCACCCTCTTTCTGCTCTAGAACACAGGATGTTATTACCTAAAGAGTCTCTGCAGTAATGTGCCTCTGCCATTAGGTGGCGAGCACGGCTCTGGTTTTTGTTTTGCTGTTTGTTTTTATTTTTTGTGTTTTGGTTTCCACACAACTAATAGAACCTAAGCTTGGGTACACAGGCTGCAGAGTTCTCCAGTATGGGAAGCTGCACAGGCAAAGACTAGAGAGCACGGCTCTACAGAAAACGATTCAAGATGGTTCAGAGAAAAATGCTCTGAGGTGCGGAGGCAGTCTATGCTCGCAGGAGGAGAGTGAGCTGGGGGAGCAGGCCATGCATAAAATGGAATCGAGTAACAGAGAATGAGGGTGAATGAACAGGACAGGACAATTGTATGTAAGGGTTCGTCCTACCCAAACCAGTGAATACAGATGAACACATTTTAAAATCAAAGTATGAGACCTCGCCATGGGGTCTTTAAGTAACAACGCGGTGCTCCTGAACACCTCGGGACTGTCTCTCCACGCTCATCCTGGCCATGCCTAGCACGACCCTAGCCAGTGGCGCATGCCCATTCTGTGTTACTAGCAAATGAATATGTATTCTTCCAGGCACTTAAATATAGAAATCACAATTGACATCTACATTTTTCTATTTCCAGTGTCTACTTTTTCCAACCTGATTTTCCCAGTTAACGATTCAACGTGTGGGCATTTCTTACACTTGGCAAACAGGTTTCTCTGGAGAACATTTTCCCACAGTGATCCAATTTTGAAAACGCTTGTCTGTAAACAAATGCCAGAGATTCTGTTCCAACCTCAGTTCTCCGTGGCTTATGTAAATATGTACCCCAGGGGCTTAATTAAATCCATGTAACCTGACAGGTGGCTAAGAGATCTTGATTAACCCACCGAGGTCCCCAAGTGTAAACTTCAATTGACTTTTCAGTAGATCGGGTGAGACAATATATACTTCCCAGCCGTGTCCTTCAGAACCACCCCAAGATTCTAGAAAACACCAGCAAGAAAGGCCGCGTGTGCCCTTTGATTCAGTGGGGGTTGTGACTTCTTAACTAAATGTTTATTTTAGATAAACCATCTTTATATTGATATTAGACATGATTCAAATGGAGTCAAATGTTGACCCTGAAGTTGGCTTCCCATGAAATCAAATACACTGCAGGTAGAACTCAGAAATAAGCGGTGCCTTTATTCCTGAACGCAAAGCCTATTGACTTTCTGATCCTCCCCGAGAGCCAGACTATCAAAGCTCAGGGCACATTCTGCCCGGCTGGGGCTTTGGTAGTGGGGATTGCGGACCCTGGAGGAGACACTGTAGGAGGACAGCCTTCCAGGGGCAGGACTGTATGGCTCTGGACAATGTCTGCCTCTGTCCTCCTCCCAG
Seq C2 exon
GTGCTCACATCCAGTTTCTGAACTTCTCCACGGAGCCCAACCACGACTTCTTAGAAATCCGGAGCGGCCCCTCCGAGACCAGCCGCATGATGGGCAGGTTTAGCGGGAGTGAGCTGCCGGGCTCCCTGCTCTCCACGTCCCACGATACCATCGTGTATTTCCACAGTGACCACTCCCAGAACCGGCCAGGATTCAAGCTGGAGTACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007057:ENSRNOT00000036029:2
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=0.169
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(34.9=92.5)
A:
NA
C2:
PF0043115=CUB=PD(64.2=95.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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]