RnoINT0003559 @ rn6
Intron Retention
Gene
ENSRNOG00000011300 | AABR07031193.1
Description
NA
Coordinates
chr18:3838796-3840301:+
Coord C1 exon
chr18:3838796-3838911
Coord A exon
chr18:3838912-3840089
Coord C2 exon
chr18:3840090-3840301
Length
1178 bp
Sequences
Splice sites
5' ss Seq
TGAGTAAGT
5' ss Score
8.82
3' ss Seq
GAGTTATTTTGTTCCCACAGTCC
3' ss Score
8.44
Exon sequences
Seq C1 exon
GTCCGGGTTCTGGTGGTACCTGCAGAGGATTACGACTACCACATACTTCACAGAACATCAGTGGACAAGTCCTCCGAGTTCATCAGCAGTTGTGGAGGGGACAGTTTTTATATTGA
Seq A exon
GTAAGTGTCATTTTGAGGGAGGGCTCTGCTCTGGCTCTGGCTCTGGCTCCGGCTCCGGCTCCGGCTCCGGCTCCGGCTCCGGCTCCGGCTCCGGCTCCGGCTCCGGCTCCGGCTCCGGCTCTGGCTCCGGCTCCGGCTCCGGCTCCGGCTCCGGCTCCGGCTCTCGCTCTGGCTCCGGCTCTGGCTCTGGCTCTGGCATGCATGGGGTGTGCTTGCATTCCCAGCCAGAGCGAGGTCTGGAGAGAGACCGGCCTGGAGTCTGCCCTCTTCTCACCAGCTAGGAAAGTAACAGTGAGTCTAGGATCTCAGGAAGGTGATGTGTTTCCTCTGTACCCTCCACTCTATAAGAAACCTTGCCATGTGCCGTCTGGACAGGGAGACGGCACTCAACCCTGAATACAGTAGAGGCCTGTGCTTGACTTGGGATTAGGGACCAGTCAGGAGACTCTCTTGCCCTTCGCTCTTCGATGCTGTATATCCTCAAAGATGCCACACCAGGTGTCTTCCACTGACAGGGACAGAGCCCAGACCTCCACTCACCTCTGTACGGGGGGCTGTGCCTTCTGGGTCCTGTCTTCTCTCATCCCTGAGTGCTAAGAGCAGGCTCGCCCCACACAAGCTCTGCTGTGGAACCCGGGGTCTGAGATGCTTCTACAAGGAGCCAGGAGCTCCAGAGGCCCTGAAGACAGACCGACTCATCTTGAACAGTGGCAGCAAAAGCAAAGGCCCCAGAGTCAACCCACTGTGTTCTTGTCCATACCTTACTCCTCATCCTCGGGAATATCGCCCGATAGCTACGGTGCCTCAGCTGCCTTATCTGTGAAGTGGACTATGACCCAGTTAGTTGGGTGGTCATGAGGTTGAGGTGTAGTGGGAGCTCCCACCTTGTCCTCACTGTCTTTCCACAAGCTGTGACTCATGCACCACACAGTCCATCCCATAGCTCTTCCACCACCGAAGCTCCTATTGGTTATTCCCGTGATGTCCTCTCCTGGAGCAGATGTTGGGGGAAGGGTGGCTGTTGCTAGCCGAATCAACAATGGGGTCGTTTTACACTTCCTCCAAAGCTCAGTAATCAGTGTCACCCCAAAAGATGCAGCCAGGTGGAACTGGTAGGACAGGGAAGCTGGGGGTGGACGCACTCCAGGTAATCACCATGAGTTATTTTGTTCCCACAG
Seq C2 exon
TCCCCAGGCAGCCTCTGGATTCTGTAAGAATTCTGCAAGGTCCTTGGTAGCCTTTTACCACAATGGTGCTGTACCCTGTGAGTGCCACCCTGCCGGGGCTGCCGTCCACCACTGTAGTCCTGAGGGTGGGCAGTGCCCCTGCCGGCCCAACGTCATCGGAAGGCAGTGCACACGCTGTGCAACAGGCTACTATGGATTCCCACACTGCAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011300:ENSRNOT00000092846:30
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:
NO
A:
NA
C2:
PF0005319=Laminin_EGF=PU(91.8=62.5)
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:
CCGGGTTCTGGTGGTACCT
R:
GCTTGCAGTGTGGGAATCCAT
Band lengths:
326-1504
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]