RnoINT0024990 @ rn6
Intron Retention
Gene
ENSRNOG00000018798 | Bcan
Description
brevican [Source:RGD Symbol;Acc:2194]
Coordinates
chr2:187368459-187369001:-
Coord C1 exon
chr2:187368827-187369001
Coord A exon
chr2:187368587-187368826
Coord C2 exon
chr2:187368459-187368586
Length
240 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
TTAGCCTCTTCTTCTGTTAGGTA
3' ss Score
8.23
Exon sequences
Seq C1 exon
GGGTCGTCTTCCTCTACCGAGAGGGCTCTGCCCGCTATGCTTTCTCCTTCGCTGGAGCCCAGGAAGCCTGTGCTCGCATCGGAGCCCGAATTGCCACCCCTGAGCAGCTGTATGCTGCCTACCTCGGCGGCTATGAACAGTGTGATGCTGGCTGGCTGTCCGACCAAACCGTGAG
Seq A exon
GTGGGCTTGGGGGTGGACCAGGAATTCCTGGTCACATCAGGGTGCTTGCTGCCTCCACCCTCCACCGAGGTTCCTCGGGACTTCCTGCCTCTGGAAAGAAAATTGGCCTATGGCCCTGTCTGGGGCTTACTTTCCTGCATCCTGACAAGTGCCCCTTCCCCACTTGTCACACAGCAGTAGGGTTGATATGGGACAGCCTTCTGGAGGAAGATACCAGTCATTAGCCTCTTCTTCTGTTAG
Seq C2 exon
GTACCCCATCCAGAACCCACGAGAAGCCTGTTATGGAGACATGGATGGCTACCCTGGAGTGCGGAATTACGGAGTGGTGGGTCCTGATGATCTCTACGATGTCTACTGTTATGCCGAAGACCTAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018798:ENSRNOT00000025496:4
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:
PF073547=Sp38=PD(42.7=54.2),PF0019312=Xlink=PU(60.4=98.3)
A:
NA
C2:
PF0019312=Xlink=PD(38.5=84.1),PF0019312=Xlink=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTCGTCTTCCTCTACCGAG
R:
TCGGCATAACAGTAGACATCGT
Band lengths:
292-532
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]