RnoINT0041832 @ rn6
Intron Retention
Gene
ENSRNOG00000025498 | Crb2
Description
crumbs 2, cell polarity complex component [Source:RGD Symbol;Acc:1309368]
Coordinates
chr3:22049697-22050172:+
Coord C1 exon
chr3:22049697-22049882
Coord A exon
chr3:22049883-22050058
Coord C2 exon
chr3:22050059-22050172
Length
176 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CAGCTGAGCCTTCTTAACAGGGG
3' ss Score
2.96
Exon sequences
Seq C1 exon
GCTTCAGTGGAGAGCGGTGCGAAGTGGATGAGGATGAGTGTGCATCGGATCCCTGTCATAATGGGGGCCGGTGCTCGCAGCGCTCTGACCCGACCTTGTATGGGGGTGTTCAGGCCATCTTCCCCGGAGCCTTCAGCTTCAGCCAAGCCGCTGGCTTCCTTTGCAGCTGTCCTCCGGGCTTTGCTG
Seq A exon
GTGAGTTACCTGCTGGAGAGCAGGGTCTAGAGCCCCAAGGATGGATCCAGCCTGGCCAATACCCTCCTCTCTCTTTCTCTCTGGGTTTCAATCTCCCTAGTTGTAAAACAGACCCTTTCGGTTCTGGTCTGGCTCTGAGGGTACAGGCAGCAGTCACAGCTGAGCCTTCTTAACAG
Seq C2 exon
GGGATGACTGCAGCGTGGACGTGAATGAGTGTGCCTCAGAGCCATGTCTCAACGGAGGTAGCTGCCAGGACCTGCCCAATGGTTTCCAGTGCTACTGTCAGGATGGATACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025498:ENSRNOT00000037257:5
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:
PF0000822=EGF=PD(16.1=7.9),PF0000822=EGF=PU(94.2=77.8)
A:
NA
C2:
PF0000822=EGF=PD(3.8=5.1),PF0000822=EGF=PU(90.3=71.8)
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:
GATGAGTGTGCATCGGATCCC
R:
TAGCACTGGAAACCATTGGGC
Band lengths:
248-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]