RnoINT0144327 @ rn6
Intron Retention
Gene
ENSRNOG00000018434 | Stab1
Description
stabilin 1 [Source:RGD Symbol;Acc:2324745]
Coordinates
chr16:7243711-7244238:-
Coord C1 exon
chr16:7244122-7244238
Coord A exon
chr16:7243908-7244121
Coord C2 exon
chr16:7243711-7243907
Length
214 bp
Sequences
Splice sites
5' ss Seq
AGCGTATGA
5' ss Score
2.01
3' ss Seq
GGCTCTCTCTGCCCTGGCAGCTC
3' ss Score
8.47
Exon sequences
Seq C1 exon
AGCTCCCAGTCTGCCAGAGCCTGAGATGCCCCCAGAATTCCCAGTGCTCCGCAGAGGCACCCGCCTGCAAATGCCTGCCTGGATACATTCAGCAAGACAATGCGTGTCTTCGTGAGC
Seq A exon
GTATGATCTGGGAACAGGGGCTCCAACTTGAAGGGCAGAGTGGGTGGCAGGGACTGGGAGGGTAACCTTTTATACTAGTACTTGCGGTCTGGCCACTTACGCAGGAAGAAAACTCTTCCTACGAGACAACGGGCCTATGGCTGCTCTGGTGGAGACCATGAAGGGGAGAGGGCTCCTGGGGCTTCACTCATTCAGGCTCTCTCTGCCCTGGCAG
Seq C2 exon
CTCTTGACCCCTGTCAGCCATCTCCTTGCTCCTCACTGGCCCGATGTTCAGTGACTCCCAGCGGGCAGCCTCAGTGTCACTGCCCAGAGAATTACCACGGTGATGGGAAAGTGTGTCTGCCCCAGGACCCATGCCTCACCAACTTTGGTGGCTGCCCCAGCAACTCTACCTTCTGCCTATACCGTGCTCCAGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018434:ENSRNOT00000025394:7
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:
PF129462=EGF_MSP1_1=WD(100=85.0)
A:
NA
C2:
PF0000822=EGF=WD(100=48.5),PF146701=FXa_inhibition=PU(45.7=31.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCTGCCAGAGCCTGAGATG
R:
AGCACGGTATAGGCAGAAGGT
Band lengths:
298-512
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]