RnoINT0003576 @ rn6
Intron Retention
Gene
ENSRNOG00000011300 | AABR07031193.1
Description
NA
Coordinates
chr18:3883346-3883795:+
Coord C1 exon
chr18:3883346-3883457
Coord A exon
chr18:3883458-3883627
Coord C2 exon
chr18:3883628-3883795
Length
170 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
AGCTACGTGATGTTTTCCAGTTC
3' ss Score
5.21
Exon sequences
Seq C1 exon
GCGCAGGTCAATTCCAGAAAAGCACAAACATTATATAACAACATCGATCAGACAATCCAAAACGCCAAAGAGTTGGACATGAAGATTAAAAACATCATTCAGAATGTGCACA
Seq A exon
GTAAGAAAAGTTACCCAGTCCAATTAAAACTTTTATTGCATAACCTTTGTTATATACTTTTGAGAGCTCAGCCTTAAGAAAGAAGATCCCACAGTGATACTTAAAGATGACAGGCTCCTCCACAAAGCTTCCAGAGCCCTCCGTTTAATAAGCTACGTGATGTTTTCCAG
Seq C2 exon
TTCTCCTGAAGCAGATCGCTCGGCCAGGTGGAGAAGGAATGGACTTGCCGGTGGGCGACTGGTCCAGGGAGCTGGCGGAAGCTCAGCGCATGTTGCGGGAGCTGCGAGGCCGAGACTTTAAAAAGCACCTCCAAGAAGCAGAGGCCCAGAAAATGGAAGCCCAGCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011300:ENSRNOT00000092846:46
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.158
Domain overlap (PFAM):
C1:
PF060089=Laminin_I=FE(13.9=100)
A:
NA
C2:
PF060089=Laminin_I=FE(21.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGCAGGTCAATTCCAGAAAA
R:
CTCTGCTTCTTGGAGGTGCTT
Band lengths:
255-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]