RnoINT0081845 @ rn6
Intron Retention
Gene
ENSRNOG00000050262 | LOC102547011
Description
uncharacterized LOC102547011 [Source:RGD Symbol;Acc:7579002]
Coordinates
chr3:8322701-8324609:+
Coord C1 exon
chr3:8322701-8322943
Coord A exon
chr3:8322944-8324501
Coord C2 exon
chr3:8324502-8324609
Length
1558 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
CTTGTTCCGTTCTATGACAGGTG
3' ss Score
9.77
Exon sequences
Seq C1 exon
ATGGCTTCCTCTGGTTATGATGTTAGTACTTCCTTCGTGATTCTCATTCCCCGAGAGCCATCTGCCAGACGAAGGAAACGGGCCTCTGCCCAGCGGAAGGAGGAGGCTCGAGCGAGGGCCTCATCCTGCTGGAGCTGGGTATGGGGAGAGGAACAGAGACAGGCAGATGACGACGGTCAGTTAGAGATGAATGACTTCGCAGTCCTCAAAGCTGATCCTGGCCAGGTGTTCTGGCCTGCTCAG
Seq A exon
GTACTGGGGCTCAACCTGTCATCTCAGGGGTGGCACATGAGGTGGGGGCAGAGGGGTGGGGAGGACAGGATTGACTAGAGGAATCTGCAAGTCACATATGAGACTTTTGCTATCCTAAAGAAAGGATGGAGGGGGTCTGAAGCCTCAGTTTCCTCATTAGGAAAATTCTGGTCTGTTCCAGTATTCTCAGAGCCCTTGCCCCACAGCTAAGAACTGTGTGGTTTTAAACCGTCTCTGAGGTTAATGATGGCCAGCGGGATTGCTCAGTGGAAAAGGTACTTGATGACAACTCTGCAAATCTAATTCCCATTCCCTAGACAGAACTGACACCCGTGCTTGGCCAGCTACTGTCTCCCTGCTCTTATCTACTAGATTCAACCTCCAGGATGCACAAACCAAAGGGCAGCCATTATTCTCCGCTTTACCCAGTTGTTTCTGAATCGACAAACACAGCCAGTGCGTGGGTCTGGGAGGAGGGAAGGCAGGAAAGCAAGAGGAGAGGGAGAATGGTTATGTTGACCCTGATGATGAGTCCATCCCAGGAGCAAGGCCTATAGTCAGGGGCCGTTAGCTCTCTGCCTCCTGCACTTGGCACTTTGTCTACTTGCTGTGGCTGCCACAGGTCAGAGCTCCAGAGGGACTTAGGTCCTTGTGTGTTCAGGAAGGAGCCCCTGCAGCCCCTGCTTTGAGCACTGGCCCTTCAGAATGCTACTAAGTAGCCTGAGACCTGGGCATGTCTTGTCTGTACCCCAGTAGCTCCCAGCATGTGCAACTGTCCTGTGCCTGGGGCTGTGCTACCCTGCTTGCCGCATTACCTTGTGTCCATGAGGCACATGGGCTGTGCTGCCAGACAGGCGTAAGAACTGGTGTGGTGGGGAGCGCTCAAACCCTGGGAGTCTCAGAAACCTGAGACGGTCGGAGTGGAGCTGCCCCCGGAACGTGTAACTACACACCAACCGAGAGGACCATGGGCGGTCATTCATGTAACGCAGCATCTGGAGTTCAAAGAAAGCATCACCAACATCCGACACTCAGCCAATAGGAAACCTTTACCTCCACAAACCCATCCCACTCCCCAAGGTCCTGATATCCCTGTCCCACATGGAATAAAGTGTACAAGTTAGTTCCCCAAGGATCATCTGAAAGGAGCTGTCTTTACTGAGCTGTAACTTTTGGAGAAGACTTCTCCCTCACAAAGCATTTATCACCGGATCTCTGACCTGCCTGGCTGGCCAGGTTCCCGCTGCCTGCAGGGGCTCACATCAGAGTGGCAGCAGCTCACACTCCTATTGCTACAGCTGTTAAGGGACTTGGGACCCCAGCTACCTGCCCAGTGCAGGCCACCCAGCCCCGAGCTGGAACACTCTTGGCATTAATGCCCAGCTGGACCTGAGTCCTGTGGAACCTGTTCATCCCAGACTCTGCCAGCTCAGTCTGGCATACAGACCTGTCTGACACCTGAGAGGGAAGTGGGCAGACTGGGGACCTCACATGTCTGTGACAGGGAGGCACATGGTCTTCTAATCCTGCCCCCCCACCTTGTTCCGTTCTATGACAG
Seq C2 exon
GTGACCACAGACAACACTGCTTCTGCACCTCCAACCACTGATGACGTTATGTTCCTCGGGGTCGTTCCTTGCCCAGATGCTGATCTCATTAGGGGGGTGTCACCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050262:ENSRNOT00000070863:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.358 A=NA C2=0.750
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTTCCTCTGGTTATGATGT
R:
CCTAATGAGATCAGCATCTGGGC
Band lengths:
335-1893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]