RnoINT0005126 @ rn6
Intron Retention
Gene
ENSRNOG00000049045 | AABR07045032.1
Description
NA
Coordinates
chr20:32042262-32042611:-
Coord C1 exon
chr20:32042463-32042611
Coord A exon
chr20:32042382-32042462
Coord C2 exon
chr20:32042262-32042381
Length
81 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGG
5' ss Score
8.98
3' ss Seq
GTCCTGTGCTCTCCTGGCAGCTC
3' ss Score
10.42
Exon sequences
Seq C1 exon
AAAACGGGGAATTCCTTTCCCTGGATCTCGGAGGGTCCAAGTTTCGGGTCCTGAAGGTGCAAGTCTCGGAAGAGGGCAAGCAAAATGTCCAGATGGAGAGCCAGTTCTACCCAATGCCCAATGAAATCACCCGTGGGAATGGCACGGAG
Seq A exon
GTATGGGCAGGAGGGATAGGCCTGGGTCCCAGCCACGAGAGAGAGGTGCGGCCTAAACCCTGTCCTGTGCTCTCCTGGCAG
Seq C2 exon
CTCTTTGACTATGTAGCTGACTGCCTGGCAGATTTCATGAAGACCAAAGATCTGACGCACAAGAAGCTGCCTCTGGGCTTCACCTTTTCTTTTCCCTGCAGACAGAATAAGTTGGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049045:ENSRNOT00000074989:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0034916=Hexokinase_1=FE(23.8=100)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(18.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTTTCCCTGGATCTCGGAG
R:
TGCCAGGCAGTCAGCTACATA
Band lengths:
167-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]