RnoINT0041828 @ rn6
Intron Retention
Gene
ENSRNOG00000025498 | Crb2
Description
crumbs 2, cell polarity complex component [Source:RGD Symbol;Acc:1309368]
Coordinates
chr3:22057422-22058871:+
Coord C1 exon
chr3:22057422-22057548
Coord A exon
chr3:22057549-22058646
Coord C2 exon
chr3:22058647-22058871
Length
1098 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TTGTCTCCCATCTATTGCAGAAA
3' ss Score
10.66
Exon sequences
Seq C1 exon
ATGTCAGAGTCTTGACCAACCCTGTGAAGCCAGTCCTTGCTTGAATGGGGGCACCTGCCGGGTGACCAGTGGCATATTTGAATGTACTTGCAGTGCAGGATTCTCTGGCCAGTTCTGTGAAGTGGTG
Seq A exon
GTGAGTGGTACCCAGGGCTGGGTGGCTAGGGTTCTTTCGACAGTGGGCAGGGAGGGCATGGCCCCTGTGGACTTAACAGTGGATAAACTTTGTTGAGGGTGGGGAGAGGATACTTAGGCCCCTTCTAGTACCCCATGTAAGAGTTATTTTCATCTCAGGGAGAGCTTAGGGAGCCCCCATCCATCACACACAGTCTGGAGCTTCCCAATGGTATCCAGGGTAGTGGCAGTGGGGACAGGTTGGGATCTTCCAAGTGTACTCTGGGACTGGCTTTCAAGACTAAAAGAACATGGAGTGTATAGTCAGTGTCCTTGGGTTCCAGAAGCACATCAGTCTTGGGCACTGTAGGTATCCCTCACCCCAAGGAGGCTCAGCACAGAGCTTTAGAGAGGCTGTGAGCCCATGGTGGGTGCTGATGTAGGGGGTTGTGAAAGGACAGTCTGGGGAGGCCCCTGGCAGGCTGGCTGTAAGCAAGGAGTCCCCTTTGCTTCTGGGAAGAGCTCCTGGCAAGGTGAACCTATAGGCTTTGCCTCCTCACCTGCCCACTATCACTTTATAGCTTTGGGGCCCCCTTCTTCAGGGCTGAATGCTGAGATTGGGTAAGCAAGTGGCAGACAGTAGTAGCAGAAAAGCCCAATATGTAGGGAAAAGCCTGGGAATGGGAGACCCTGATGTTTGGATTGCTGGGGTTCTCAGTCTGGGACTTGGAACCTTTAGTGGGACACCCTGGGACTCTGTGACTGGAAATGGAGAAAAGCTGCCCTTACCCCCAAACCAGGCTGTCAGAACAGCAGGCAGGCAGGCAGGCAGGCAGGCAGGACATAGTGAATTCAGTCTTTCCTTATCATTAGTGGACTCAGTTCACTCCAGCTCTGCTCTCTGTTCCTGCTTTACTTCAGCTGACTGTTGTTGACTTCTTGTGACAACCCTCACAGGAACTCCTGGAATGTCCACTGTTTACCCTCCTAGCCAGGGCTATGCCACACTCCCTAGCATTGGCTGGGACAGGTGGCTTCTTAGCTTCTTTGCTTGGACATCTCAGGGACTCACTAACTCTGGGAGACTTCCCTGAGTTTTCTTGTCTCCCATCTATTGCAG
Seq C2 exon
AAAACCCTGCCTCTGCCTCTGCCATTCCCACTGCTGGAGGTAGCAGTGCCTGCAGCCTGTGCCTGCCTCCTCCTCCTCCTCCTGGGCCTCCTCTCAGGAATTCTGGCTGCCAGAAAGCGCCGCCAGTCTGAGGGCACTTACAGCCCAAGTCAGCAGGAGGTAGCTGGGGCTCGTCTGGAGATGGACAGTGTCCTCAAGGTGCCACCAGAGGAGAGACTTATCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025498:ENSRNOT00000037257:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.041
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=88.4)
A:
NA
C2:
NO
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:
TCAGAGTCTTGACCAACCCTGT
R:
AAGTCTCTCCTCTGGTGGCAC
Band lengths:
343-1441
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]