RnoINT0100348 @ rn6
Intron Retention
Gene
ENSRNOG00000009377 | Nelfb
Description
negative elongation factor complex member B [Source:RGD Symbol;Acc:1307832]
Coordinates
chr3:2430172-2430594:-
Coord C1 exon
chr3:2430431-2430594
Coord A exon
chr3:2430272-2430430
Coord C2 exon
chr3:2430172-2430271
Length
159 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
AACTGAGCAAGTCTTCGCAGGTA
3' ss Score
-2.26
Exon sequences
Seq C1 exon
ACAGAGAATGGCGTGTTGCTGCCTTCCCTGCAGTCGGCCCTGCCCTTCTTGGATCTACACGGGACACCGCGGCTGGAGTTCCATCAGTCAGTGTTTGATGAGCTACGCGACAAACTGCTGGAACGAGTGTCAGCTATTGCCTCTGAGGGAAAGGCAGAGGAGAG
Seq A exon
GTGGGTCTCTACCAGGGAGCTGCTTATGTTTGTGAGTAGCATTTACGGTCTCCGTGGCTGCACAGCCCTACTTGTAGCTAGAACCTTGAATGTGTTTGAGAGACTCCCCTTCTCTGTATATTCTGCATGTGGAGAACACAACTGAGCAAGTCTTCGCAG
Seq C2 exon
GTACAAGAAGCTGGAAGACCTTCTGGAAAAGAGCTTTTCTCTGGTCAAGATGCCATCCCTACAGCCAGTGGTGATGTGTGTTATGAAACACTTGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009377:ENSRNOT00000012978:2
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:
PF062098=COBRA1=PU(3.4=47.1)
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:
ACAGAGAATGGCGTGTTGCTG
R:
AACACACATCACCACTGGCTG
Band lengths:
246-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]