RnoINT0106107 @ rn6
Intron Retention
Gene
ENSRNOG00000030316 | Otogl
Description
otogelin-like [Source:RGD Symbol;Acc:1589018]
Coordinates
chr7:51836631-51838648:+
Coord C1 exon
chr7:51836631-51836683
Coord A exon
chr7:51836684-51838485
Coord C2 exon
chr7:51838486-51838648
Length
1802 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CTCCATGCTTGTATCTGAAGTCC
3' ss Score
2.7
Exon sequences
Seq C1 exon
CCAGTGTTCAAATGGGACTGTGAAATGTGATGAGACAGCAACGCCCTCTACTG
Seq A exon
GTGAGTCCCAGAGAACGGTTTTCCTGGGAGCAAGTATGTCAAACACTGCCTCATCGTCTTCTGACAGAAGACTCTCGTAAGGCCCTTACTAAAGCAAGGGCACATAGTAGTATCATGCAGTCAGAACAGTGTTCCAGTGATTCCTGGCTATTTCCACATCACTAACTATAGTATTTGTAGGACAGTGGGAAGTCAGTGTACGAGGCTGCTTAGAGACAGAGATGGCCAGCCAGGCATGAAGCTTTTATATCATCAACGCCAGCCCCACCTAAAGGGTTTAGCGTTATTACCCAGATACTGGTTGTAACATAGCCTTGGATCAGAAAGCAGAAAACTCTATCCTAGAACAACACTTCTCAGCCGTTAGTATCCATACAACGACCTGGTGATCTTATTAAGACTTAGGTTCTGATTTTTGAATGAGAAGCCATACCAGGGATTCTGAATACCTACCAATGGCCGAGGTAATGCCAGTGCTTCTAGGTTCTGGGATGTGTCTGGTAAGCAAGGTTTTTAGGATTACTTGTAACAAATGGAACGTGGTAAAGAGCAAGAGTGTGGTGGCACAGTACTGAAATCCAGCGCCAAGGAACAGGGGCAAGGCCGTCCAGGTCTCAAGGTCAGATGCAGAGTTAGAAGCATCTGGCGTATGTAAGACTATGCTATGAAAATATAAAATAAAATCAAAGGGTTTATGAACTATATCCATTGCTATTTCTCTTAGACTATAACTTTCCACTGGAATATGTATCCTGCAGATCTACAAGTCAGAGGACTGTATAGGTCTGTATTTTTGTCAGATTATAGGCAAAAATAGTCTATAGTTGTCATTTGACAACTCTTGGTTTCCATTCTGTTAGACAGGGATATTGTAAGTCAGCTTCGAGCCAAGCAAGGTGGCTTGCGTCTACTCTCATTAAAGAGGCTAAAGCAGAGGCAGGAATTACAGTCCAACCTGGGCTTGATAGTGAGACCCCATCCCTTAGACACAAAACAAAACAATGAAATGCCCTTTGAGTTACACGTTCTAGATTTACTTTGTCCGGATTTAGGTCAGTCTGGGGCTTCCTTACGGGTCATGTTACAGGGCCTCGAAGAAAACACAATAGCTACTGGAAATCCTCATTATGCCCCTTTTAGTGCAGGGTAGCTCACAGTTAAAGCAGGGATTACTAGGTAGCCTGCTTTCTCAGTGGAGTCCTCACCAATCTATTCTTGTGGTCCCATGCAAGTGTCTTATTTCATTTCTCACAGCCCCAAAGCCTTCTGGGAAACAGTGCCCCTCCCCAACCCCCTACGACCCTGATCCCAGGTCCTGCGGTGTAACAGGGGCCGCTGTACTACTCTGTACAGTGCAGTAAAGACAGATGAAAATAATGACTCGGGCCAAGGCAAGATCAAGAAGTAACATGTATTTATTATGGTCATGTGAATGTTTAATATGTAGTGTAGCTTTCAGTCCTTAAAAATTGGCATGTTTGAAGTAAACAACGTACCATGTTTGTTTGTTTGTTTGTTTGTTTGTTTGTTTTTTTCTTGTTGACGTCAAGAAATTATATGCTAATTATTTAGTGAATTGCGGGGAAAGGTGGCTAAGGTTTTCAGGTTTGAGACAGCTTTGGGGAATTGTGAGATGGAACAGACTCTGGCTAGGTAATGCTCATAAACTCGAGGATCACAGAAAGAGAGAGTCCTTTCACTAAAGCAATGATCTGGGCAATGGGTTTTATTTGAATGATTTGTGCATAAGATTTGCGCCAAATACAAAGTTAAAACCATGGTCTCCATGCTTGTATCTGAAG
Seq C2 exon
TCCACGCCTGCCCAGAAGGGAAGGAATATTTTGACTGCAGGTTTCCTGACCCTGAATTACCAGCTGGTGGTATAAATTGCGAGACCACGTGTGCAAACATGGCCATGAACTTCACCTGTGCTCCATCCTCGCCTTGCATCAGTGGCTGCGTTTGTGCTGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030316:ENSRNOT00000043774:21
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:
PF0182612=TIL=PU(77.3=92.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
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:
CCAGTGTTCAAATGGGACTGTGA
R:
CTGCAGCACAAACGCAGC
Band lengths:
215-2017
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]