RnoINT0003584 @ rn6
Intron Retention
Gene
ENSRNOG00000011300 | AABR07031193.1
Description
NA
Coordinates
chr18:3773752-3774504:+
Coord C1 exon
chr18:3773752-3773842
Coord A exon
chr18:3773843-3774372
Coord C2 exon
chr18:3774373-3774504
Length
530 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGT
5' ss Score
10.27
3' ss Seq
GGTGATGTCTTTCCTCTTAGCTT
3' ss Score
5.98
Exon sequences
Seq C1 exon
CACAACACTGCGGGTGTGAACTGTGAAAAGTGTGCGAAGGGTTACTTCCGGCCCCATGGAGTTCCGGTGGAAGCACTGCACGGATGCATCC
Seq A exon
GTAAGTCCCTTGTCAATTTCGTGAGTACGACGAGCTACGTGTACTCCCCTAAGAGTGTCCTAGGCTCCGGATCAGCCGACAGTCTCCCCTTGCCTTCCTGTTGTCGGCTCTGCTTTTGCCTAGTTGTCTCAACGCAGGCAACTCCATGCTTTCTCTGAGTCCCTGAATTCTTATACGTAAATGATAATAAATATTATTTCATAAGTGTAGGTGAAATGATATCAAATTTATCTAGGCAAGCACTTAATTTATTGGGTTTGGCCCTATTAAATCTGCAATAAATGTTGCTTCTTCGGTTTTCTACTGGTTTGACATGTTACTATGATCGCCAGTAATTCCAACTTTGTCATAATTAGAATCAAAAACTGTAGTAATAAATCCATAAATATTCATAGTGTTTAGCTTTGGTTGAGTGCTTACTATGCAGGAGAGATCGTCTGAGCCAATGGGCATTACTAAGAAGTGTGAGGCAAATCTGCCTTATGAATCACAGTGGAGAGCTGGTCCTTTGGTGATGTCTTTCCTCTTAG
Seq C2 exon
CTTGCAGCTGTGACCCTGACCGTGCAGATGAATGTGACCAGGGCTCAGGCCGCTGTCATTGTAAGCCAAACTTCTCTGGAGACTTCTGCGAGACGTGTGCAGACGGATACTATAATTTCCCATTTTGCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011300:ENSRNOT00000092846:9
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:
PF0005319=Laminin_EGF=PD(41.2=90.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=97.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGCGGGTGTGAACTGTGAA
R:
GGCAAAATGGGAAATTATAGTATCCG
Band lengths:
214-744
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]