RnoINT0041836 @ rn6
Intron Retention
Gene
ENSRNOG00000025498 | Crb2
Description
crumbs 2, cell polarity complex component [Source:RGD Symbol;Acc:1309368]
Coordinates
chr3:22054253-22056087:+
Coord C1 exon
chr3:22054253-22054418
Coord A exon
chr3:22054419-22055309
Coord C2 exon
chr3:22055310-22056087
Length
891 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
GTGGCTCTCTCTCTCTGCAGGTG
3' ss Score
13.82
Exon sequences
Seq C1 exon
CCCAATCCCTGTTTCAATGGTGGAACATGCCACATCACCTGGAATGACTTCTACTGCACTTGCCCTGACAACTTCACGGGGCCCACCTGTGCCCAGCAGCGATGGTGCCCCAGGCAGCCATGCCTGCCGCCTGCCACCTGTGAGGAGGTTCCAGATGGCTTTGTGT
Seq A exon
GTGAGTTTGTGTCCTGGGTTCTGGGTACTGTAGATGGTTAGAAATCCCTTAGGGTTTACAGGATGTTGGGTGGTGGATCAGTAATGCCACCATCCCCAATATGGAGGGTCACTGCATTCTGAGAAACATGGGAGGGGCAAGGGGAAGGGGGCTGAGCATATGCTGGGGTTTCCAAGGCAACTTCAAGGAAGCCACAGGAGAGGCAGGTTAGAAGGAGTGTGTGGCATGCAGGAGGTTTTAAAGTTCTTAGGACAGCTGAAATACAGATCATGGAAAGTGCACGCAGGAGAAGATGGTGGGGGTTTTGAAGCCCTCCAAGCAGCTCAGAGACCAAGGGGCTCACGTTGCTTAGGCTAGCCGTGAACTCACCATGTAGCATGAACTTGCCATGATTTGAACTTGTGCTTCTCCTGCCTTAACTTCCCCAGTTCAGGGACTACAGATATGGGCCCCTATGCCCAATTTGCTGGGTGCTAGGAGTGGAATCCAAAGCCTCCCACATGCTAGGTAGTCTACCAGCAGAGCTACACTGCCAGCCTTACAGAGGGTAAGGGGGAGAAGGGTGTGTGTGACTGGACCTGCACCTGTATGCAGTGAAGAGCGAGCCTCCTTCAGGGAGGAAGGGAACAGGCTAGACTTGTGAGGGGTTAATATTAATATGTCTAGGGCCTTCAGGGTAGCAGGTATTGTGGTCCCCTTAGGACCACCCCGGAACTGATTCCCTCCAGGTGGAGAATGCATAAGGGGTGGAAGAGGGAGCTGCAGTTTCTGAGATCAGGTGACAGGTGGGTGCCTGCTCTGGTCAACAGTTGTGGATCATGGACCCTACCACCTGCACTCTTGGTGTAGAGGTCTGGCAGGTCATTTCCCAGTGGCTCTCTCTCTCTGCAG
Seq C2 exon
GTGTGGCCGAAGCCACGTTCCGCGAGGGCCCTCCTGCTGTGTTCACAGGCCACAACGTGTCCTCATCGCGCGCGCTCAGCAGGGTCACCCTGGCCTTCCGCACACGCGACCTGGAGGCTGGGCTGCTGCGCGCTGCCTCTGCCGCGGGTGCCCACTCCAATATCTGGCTGGCGGTGCGCAATGGCTTGCTGGCAGTAGATGTGGCGGGCTCGGTGCTGCCGGCGCCCGGGCCGCGCGTGGCTGACGGTGCCTGGCATCGCGTGCGCCTAGCCCGGGAGTTTCCACAGGCCGCCGCCTCACGCTGGCTGCTGTGGCTGGACGGCGCGGCGACACCCGTGGCTTTGCACGGCTTGGGCGGCGACCTGGGTTTCCTTCAGGGCCCGGGTGCCGTGCCTCTGCTACTGGCCGAGAACTTCACGGGCTGCCTGGGCCGGGTGGCGCTCGGCGACCTCCCCTTACCCTTGGCGCCACCGCGGTCCGGCGCGATGTCTGGGGCACGCGAGCACTTCATGGCTTGGCCTGGGTCTCCGCCGGCAGTGAGCCTAGGCTGCCGGGGCGGGCCAGTATGCACGCCCTCGCCCTGCCTGCACGGCGGTGCCTGCCTCGACCTCTTCGACGTCTTTGCTTGTTCCTGCGGCCCCGCCTGGGAAGGACCCCGCTGCGAGATCCACGCTGATCCATGTCGCTCATCGCCCTGTGTCCGGGGCCAATGCAACACGCGCCCGGACGGCCGCTTCGAGTGTCGGTGCCCTCCGGGTTTCTCCGGCCCGCGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025498:ENSRNOT00000037257:9
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=0.012
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(90.3=50.0)
A:
NA
C2:
PF0221019=Laminin_G_2=WD(100=45.8),PF0000822=EGF=WD(100=11.9),PF126612=hEGF=WD(100=5.0)
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:
TGGAACATGCCACATCACCTG
R:
TCTACTGCCAGCAAGCCATTG
Band lengths:
345-1236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]