RnoINT0106079 @ rn6
Intron Retention
Gene
ENSRNOG00000010983 | Otog
Description
otogelin [Source:RGD Symbol;Acc:1306610]
Coordinates
chr1:102314314-102314807:+
Coord C1 exon
chr1:102314314-102314534
Coord A exon
chr1:102314535-102314668
Coord C2 exon
chr1:102314669-102314807
Length
134 bp
Sequences
Splice sites
5' ss Seq
TTTGTAGGT
5' ss Score
1.17
3' ss Seq
TGACTAATGCATTCGTCCAGGTC
3' ss Score
5.94
Exon sequences
Seq C1 exon
GTATCTGTGATGGAGACACAGCCAATGACCTCACCCTGAAGGATGGCTCTGTGCTGGGCGAGGCAGAGGACCCTGCTCTCTTTCTGGATAGCTGGCAGGTGCCCAGCTCCCTGACCTCAGAGGGTCAGACCCGCTTCCGCCCAGACAGTTGCTCTACAGCGGACTGCTCGCCCTGCCTTCGCATGGTGTCCAACCGCACCTTCAGTGCCTGCCACAGCTTT
Seq A exon
GTAGGTGCCCATGGAGTACGGCATGGGGAGGGCACCCGGGGAGACACCATGGACTTCTGGGCAGGGTTAAGCTGAGCTGGACCCTGGGATTCGGGGCATCAGGATGGGCAGCACTGACTAATGCATTCGTCCAG
Seq C2 exon
GTCTCCCCAGAGTCATTCTGTGAGCTGTGGATCCGGGACACCAAGTACGTGCAGCAGCCCTGTGTGGCCCTCACTGTGTATGTGGCCATGTGTCACAAATTCCACGTGTGCATTGAGTGGCGGGGCTCCGACTACTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010983:ENSRNOT00000068434:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(10.3=21.6),PF087426=C8=PU(31.4=29.7)
A:
NA
C2:
PF087426=C8=FE(65.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAATGACCTCACCCTGAAG
R:
TACTTGGTGTCCCGGATCCAC
Band lengths:
248-382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]