RnoINT0003562 @ rn6
Intron Retention
Gene
ENSRNOG00000011300 | AABR07031193.1
Description
NA
Coordinates
chr18:3849448-3850158:+
Coord C1 exon
chr18:3849448-3849592
Coord A exon
chr18:3849593-3850017
Coord C2 exon
chr18:3850018-3850158
Length
425 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CAGGACTCATTCTTCAACAGGAA
3' ss Score
6.58
Exon sequences
Seq C1 exon
GTGCAAGCCTAGAGTCACGGGGCAGCAGTGTGACAAGTGTGCTCCTGGCTTCTACCACTTCCCTGAGTGTGTCCCCTGCAGCTGTAACAGAGATGGGACTGAGCCCGGAGTATGCGACCCAGGGACTGGGGCTTGCATGTGCAAG
Seq A exon
GTGAGACAGGTCACGTGCCAGGAGTTCTTCAAGAGAACTGACCCTGATATATTCTGTAAGGTGCTAGCATTTCATACTCTTTGTCTCCTTTCATAGGGATGATTGAAGGAAAGTTCTTCCTCACCCTTTGGAAAGGCCACAGACCCCTTCCCCTCCCTATGATCATCTGTTGATGTAGATAAATCCTTTCCAGAAAAATCAAAACAAACTGTTTTCTATAGCATCAAGAAGCCCATAGCTTCCTTGTGATTTGTTCTTGAATAAGGATCTGATGTTATCCACCCTGCTACAGGGCCCACTGGCTTATAGGTGGGGTTCATATCCTAGTAAACCCCAATTGCTCTCCTCCAGCTGTCAGCCTTTATGGCACTGTCTCTGTGCGTCCCAAAGCTGGAGAGTGTCTTACAGGACTCATTCTTCAACAG
Seq C2 exon
GAAAATGTGGAGGGCCCCCAGTGTCAATTTTGTCGAGAAGGATCATTCTACCTGGACTCCGCCAACCCAGAGGGTTGTACCAGGTGCTTCTGTTTCGGAGTGAATACTGACTGTCGGAGTTCACACAAGCGAAGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011300:ENSRNOT00000092846:33
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:
PF0005319=Laminin_EGF=PD(51.0=51.0),PF0005319=Laminin_EGF=PU(44.9=44.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(51.0=53.2)
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:
GTGCAAGCCTAGAGTCACGG
R:
CTTGGCTCTTCGCTTGTGTGA
Band lengths:
286-711
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]