RnoINT0003560 @ rn6
Intron Retention
Gene
ENSRNOG00000011300 | AABR07031193.1
Description
NA
Coordinates
chr18:3840090-3841335:+
Coord C1 exon
chr18:3840090-3840301
Coord A exon
chr18:3840302-3841130
Coord C2 exon
chr18:3841131-3841335
Length
829 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
3' ss Seq
GTCTCTTTATCCCTTGGCAGCTT
3' ss Score
8
Exon sequences
Seq C1 exon
TCCCCAGGCAGCCTCTGGATTCTGTAAGAATTCTGCAAGGTCCTTGGTAGCCTTTTACCACAATGGTGCTGTACCCTGTGAGTGCCACCCTGCCGGGGCTGCCGTCCACCACTGTAGTCCTGAGGGTGGGCAGTGCCCCTGCCGGCCCAACGTCATCGGAAGGCAGTGCACACGCTGTGCAACAGGCTACTATGGATTCCCACACTGCAAGC
Seq A exon
GTAAGTGAGCACCGCCAAGCTTCTGAAGACCCTTCTGGTGCTCATGCATGGCATGGCTTCTCAAATGCCACTGTTTGGACACTCCCCCGGGGGCTTATGGCAAGGTCCTGACTCAAGAGACCTAGCCTGGGCCTGAAACTCCGTCTTTCTAATAAACTTGCAGGTTATCTCATGCCACATGTCTACAGACTATACTGTGAGCAGTGAGGCTCTAGGCTGTGAATGTAAACATGAACAGGAGGGTATATAGGTAGCCTGTGAGCAGCTCCTTCCTGGCAGAAGCACTTTCAGGCTTTGTGGCCCAATGAAACCTCACTTTAGATAGGACATTCAAGGCCTCCCAGACCTATTACTCACTAACTTAAAAACCCTTGCATTTTTACTTAAGAACTACCTAATGGCCTGGGTCTGCCCATGCAGTAAGTGGCAGTGAGAGGCATAGGTGTGCAGATCACAAGGGGACCAGTCTTTGGATAAACAGAAACAGTCTCACTACAGCAGACGTGCTGACCCTGGACCTGAGTGCTCTGGGTGGCTGGGGAGTTGCTTCACGATGTTTTGAACTTGACGCCTTCTAGAGCCTTCTGATGAACAGGAGGCCCATGATAGAGTAGGGGGGCAGCTGCTGGTCAGTTCATGGAGTATATAACCTGCAGCCAGTTACTTCAGCTGCCTGTCAGTTGCTATGACTGGTTCAGATCACCATGGGCAATTATGTCCACACAGAAGGGAAGGAAAAACATTTCCCTAGGACTACTTGGGGACTTAGGGAAATCCCCATGGTTTGTGCAATCCAACGCTCATCCAGTGTCTCTTTATCCCTTGGCAG
Seq C2 exon
CTTGTAATTGTGGCAGACGCCTTTGCGAGGAGGTGACAGGGAAGTGTCTCTGCCCACCCAACACAGTCAGGCCCCAGTGTGAGGTCTGCGAGATGAATTCCTTCAACTTCCACCCTGTGGCTGGCTGTGAAGTCTGCAACTGCTCCAGGAAGGGCACCGTTGAGGCAGCCGTCTCTGAGTGTGACAGGGACAGCGGGCAGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011300:ENSRNOT00000092846:31
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=PU(91.8=62.5)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(6.1=4.3),PF0005319=Laminin_EGF=PU(46.9=33.3)
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:
AGGCAGCCTCTGGATTCTGTA
R:
CAGTTGCAGACTTCACAGCCA
Band lengths:
349-1178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]