RnoINT0041831 @ rn6
Intron Retention
Gene
ENSRNOG00000025498 | Crb2
Description
crumbs 2, cell polarity complex component [Source:RGD Symbol;Acc:1309368]
Coordinates
chr3:22049148-22049882:+
Coord C1 exon
chr3:22049148-22049287
Coord A exon
chr3:22049288-22049696
Coord C2 exon
chr3:22049697-22049882
Length
409 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TGTTTTCATGTGTGCCCCAGGCT
3' ss Score
7.55
Exon sequences
Seq C1 exon
TTTCCGGTGCGACTGTGCGGACACGGGTTACGAAGGCGCGCGCTGTGAGCAGGAGGTGCTGGAGTGCGCCTCTGCGCCCTGCGTGCACAACGCATCCTGCCTCGACGGCTTCCGGAGCTTCCGCTGCCTCTGCTGGCCAG
Seq A exon
GTGTGTGTGTGCGCCTGCCACTCCCCCACTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTAGGGAGGGAGAGAGGGGGAGAGGGAGAGAGGGAGGGAGGGGGAGAGGGAGGAGGGAGGGAGAGAGAGAGAGCAGTTTGGGCCCTCTGAGACCTGCATGTGCAACCTACTTGTGTGAGTCACAGTTTACTGATCTGCAAACAGGGTTGCTAACAGCACCTGCCCCTTGGGTTGTACCAATTGGGAGCTAGCTATACTAGTCCCTATCGTCCTCTGTCAATATTCGCATCCTGATGTCTCTGTTGGGCCCTGGGTTGGCTTGGGTCATGGAGGGGAACTGCTTAGACACTTGTGTTTCCTGACATGTTTTCATGTGTGCCCCAG
Seq C2 exon
GCTTCAGTGGAGAGCGGTGCGAAGTGGATGAGGATGAGTGTGCATCGGATCCCTGTCATAATGGGGGCCGGTGCTCGCAGCGCTCTGACCCGACCTTGTATGGGGGTGTTCAGGCCATCTTCCCCGGAGCCTTCAGCTTCAGCCAAGCCGCTGGCTTCCTTTGCAGCTGTCCTCCGGGCTTTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025498:ENSRNOT00000037257:4
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(43.8=29.2),PF0000822=EGF=PU(80.6=52.1)
A:
NA
C2:
PF0000822=EGF=PD(16.1=7.9),PF0000822=EGF=PU(94.2=77.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTCCGGTGCGACTGTGC
R:
GGAGGACAGCTGCAAAGGAAG
Band lengths:
315-724
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]