RnoINT0100344 @ rn6
Intron Retention
Gene
ENSRNOG00000009377 | Nelfb
Description
negative elongation factor complex member B [Source:RGD Symbol;Acc:1307832]
Coordinates
chr3:2430431-2431148:-
Coord C1 exon
chr3:2430828-2431148
Coord A exon
chr3:2430595-2430827
Coord C2 exon
chr3:2430431-2430594
Length
233 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TTTACCCTTTGCTTCTCCAGACA
3' ss Score
9.84
Exon sequences
Seq C1 exon
GGACCTAGACAGTCAAGGGCGGAAGTGGGAGGTGTGGGTCGGTGCAAGCAGCTCTGCTGACGCGATCTGGCCACACTGGAGGCGGCGGGCGAACGGGGCTTGGGTGGTCCTCGTGGCACCGTGGAAAGGACGTCTGGGGCTCCGTCAGCGTCCGCTACGGCTCCAGCAGAGCGCGGCGGGGATGGGGTACACAGCCGAGCGGCCGTCGGAGCCTCGGCCATGTTTGCGGGGCTCCAGGACCTGGGCGTGGCCAATGGCGAGGACCTGAAAGAGACCCTAACCAACTGCACCGAGCCTCTCAAGGCCATTGAGCAATTTCAG
Seq A exon
GTAGGCAGAAGGGACCGGGGCAGCTAGGGAAGCGGGACACAATTCGGTGCGCTCCCGATGCTTAGATGGAAGAACTAGAGGTTCTGAGCTAGGGACCCGCTGAGTAACTCTCGGCGTTTTTCCTTTCCCGCGGTTACCATGGCGGACCCGTTTACTCAGGGCATCCGAGGTGCCCGTGCTGATTTGGCTGCGGCCAAGCAAAATGCGTACGCGTTTACCCTTTGCTTCTCCAG
Seq C2 exon
ACAGAGAATGGCGTGTTGCTGCCTTCCCTGCAGTCGGCCCTGCCCTTCTTGGATCTACACGGGACACCGCGGCTGGAGTTCCATCAGTCAGTGTTTGATGAGCTACGCGACAAACTGCTGGAACGAGTGTCAGCTATTGCCTCTGAGGGAAAGGCAGAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009377:ENSRNOT00000012978:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GGATGGGGTACACAGCCGAG
R:
CTCCTCTGCCTTTCCCTCAGA
Band lengths:
304-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]