RnoINT0024995 @ rn6
Intron Retention
Gene
ENSRNOG00000018798 | Bcan
Description
brevican [Source:RGD Symbol;Acc:2194]
Coordinates
chr2:187362212-187362857:-
Coord C1 exon
chr2:187362750-187362857
Coord A exon
chr2:187362371-187362749
Coord C2 exon
chr2:187362212-187362370
Length
379 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CGTCCTCCCCTCTGCTCCAGGCC
3' ss Score
10.7
Exon sequences
Seq C1 exon
GTGACTGTATCCCCAGCCCCTGCCACAATGGTGGGACATGCTTGGAGGAGAAGGAGGGTTTCCGCTGCCTCTGTTTGCCAGGCTATGGGGGGGACCTGTGCGATGTTG
Seq A exon
GTGAGTTTGTTGAAGGGCGCGGGGGCAGGTCATAAGCCTGGATCCTACCCCAATATACTAGTTCCTGAGGTGGGGGGAGGTCACTGGTTTGGGCCTTGCCATGAATTGCCACTTCAGGCAAGTTACACAGCTGGTCTGAACCTTACTGTCACCGTCCTGTCTCCGGAACAGGAAGGAGGGTAGCGTCTTCTCCAGCATAGAGGACTGCCCAGGTCAGAGTTGGAGAGTCAGCTGACCTAGCCACTGGTCAAGAGCCCTCCAGGCTCAGGGCTCCTGGCTGCACTTGAGTGGTTCTGAGTCCTCCCCTCCTGCTGCTAGCCTGCCAGTTAAAGAATCTAAGACCTGGCAGCCTAAGCCACCGTCCTCCCCTCTGCTCCAG
Seq C2 exon
GCCTCCACTTCTGCAGCCCGGGCTGGGAGGCCTTCCAGGGTGCCTGCTACAAGCACTTTTCCACACGAAGGAGTTGGGAGGAGGCAGAAAGCCAGTGCCGAGCGCTAGGGGCTCATCTGACCAGCATCTGCACCCCTGAGGAGCAGGACTTTGTCAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018798:ENSRNOT00000025496:9
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=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=83.8)
A:
NA
C2:
PF0005916=Lectin_C=PU(30.2=59.3)
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:
GACTGTATCCCCAGCCCCTG
R:
CGTTGACAAAGTCCTGCTCCT
Band lengths:
265-644
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]