RnoINT0083486 @ rn6
Intron Retention
Gene
ENSRNOG00000042847 | LOC687707
Description
hypothetical protein LOC687707 [Source:RGD Symbol;Acc:1597577]
Coordinates
chr10:57239993-57240376:+
Coord C1 exon
chr10:57239993-57240081
Coord A exon
chr10:57240082-57240175
Coord C2 exon
chr10:57240176-57240376
Length
94 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CACTACCCCTGCTCCTCCAGGTG
3' ss Score
9.38
Exon sequences
Seq C1 exon
TGCATGTACCATCTGTTGCAGCCATGAAGGGGGTTCCCAGCAATTTGGACACCCTGCTGTGGGTCTACCACTTCCACAGCTCCACTGAG
Seq A exon
GTGAGGATATGAGAATGGCCCATCCAAAGGCAGCATCTGGAGAGGTCTCCAGCGCTTCCTGCTGTGACCCTTTCCACTACCCCTGCTCCTCCAG
Seq C2 exon
GTGGCCCTACAGCCTCCACTTCTCTCTTCCCTGGAACTTGCTGTGGCTGCGGCTCACGAATATCTGGTACAAAGGTTCAGAGAGCTTAAATCCCAGGACCCCCTAGAATCTGACAAGCTGCCTACGCAGACAGCCTCCTTAGGACTGGTGCTAAGAGAAGCTGCAGCCAGCCTCATGAGCTTTGGAGCCACCTTGTTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000042847:ENSRNOT00000067919:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.075
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
AATTTGGACACCCTGCTGTGG
R:
GCGTAGGCAGCTTGTCAGATT
Band lengths:
175-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]