RnoINT0043252 @ rn6
Intron Retention
Gene
ENSRNOG00000019068 | Ctrb1
Description
chymotrypsinogen B1 [Source:RGD Symbol;Acc:2444]
Coordinates
chr19:43907899-43908393:-
Coord C1 exon
chr19:43908315-43908393
Coord A exon
chr19:43908080-43908314
Coord C2 exon
chr19:43907899-43908079
Length
235 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAC
5' ss Score
7.29
3' ss Seq
TGAGCTTCTTGTCCCCACAGGTC
3' ss Score
12.15
Exon sequences
Seq C1 exon
GACCTCCGACGTGGTGGTAGCTGGAGAGTTTGACCAGGGCTCCGACGAAGAGAACATCCAGGTCCTGAAGATCGCACAG
Seq A exon
GTACACAGGCTGCTGGATGGGGGAGGGGCTCAGCCCACAAGCTGGGGGAGCAAGCCCAGGAAGGAGACGCCCCTGGCGCCTTAAAGGACAGGAGCACCGTAGAGCTGGGACTGGTCTGAGAAGTCTCTTTCTGGGTCTGTTCTGATGAGGCCAAAAGGAATGGACAGTGTGTCCCCTGGGACTTGGCAGAGCCCAGGTCCCCCCCAAGCCTTAGTTGAGCTTCTTGTCCCCACAG
Seq C2 exon
GTCTTTAAGAACCCCAAGTTCAATATGTTCACTGTGCGCAATGACATCACTCTGCTGAAGCTGGCCACTCCTGCCCAGTTCTCTGAGACTGTGTCTGCCGTGTGTCTACCCAACGTCGATGATGACTTCCCTCCTGGCACTGTGTGCGCCACCACTGGCTGGGGCAAGACCAAATACAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019068:ENSRNOT00000026017:4
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:
PF0008921=Trypsin=FE(11.7=100)
A:
NA
C2:
PF0008921=Trypsin=FE(26.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCGACGTGGTGGTAGCT
R:
TGTATTTGGTCTTGCCCCAGC
Band lengths:
254-489
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]