RnoINT0046497 @ rn6
Intron Retention
Gene
ENSRNOG00000017680 | Dennd2d
Description
DENN domain containing 2D [Source:RGD Symbol;Acc:1305120]
Coordinates
chr2:209115139-209115891:+
Coord C1 exon
chr2:209115139-209115223
Coord A exon
chr2:209115224-209115651
Coord C2 exon
chr2:209115652-209115891
Length
428 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TCTGTTTTTGTCTCCTGTAGCTT
3' ss Score
10.92
Exon sequences
Seq C1 exon
GTTGGTGATGAGAAAGACATCCTACCACGGAAACTTCAGGATGACATCTTGGACTCTCTTGCTCAAGGAATAAATGAGTTAAAGA
Seq A exon
GTAAGTTCTAGGCTCCTCTTTTAAAGATTTTAGCCTTTTCCTGGCAGCTTGAGAAAGTTATTCTCAACTTGTTTAGTAAAATGAACTTGTTTAGTAGCTCGTGTGAGGGGACTAGATTCTGAATATGAGATTTTGGTTTTTTTAAAGAATCATAGAAAATTCATACCCAGGTTCTTAGACTCCCGACCCCATTTTGTGAGGTCTGTTCTTCAGAGTTGTAGCAATCCACCTCAGACTCTTAGGATTGTAGGCATGAGCCACCCCAGGCTCACACTCCTATAGAATCAGTTGTTTACTCTGATGTGATGCTTTTCCTGAGAACTTCTGGACGGTAATGAAAACCAGAATTAGGGGCGAATCTGGGTAGTTTCATCCTTCTATTGATCTAAGATATTTTTTGGATTTTTTTCTGTTTTTGTCTCCTGTAG
Seq C2 exon
CTTCAGAACAAATCAATGAGCATGTTTCAGGCCCTTTTGTACAGTTCTTTGTCAAGACTGTGGGCCACTATGCCTCCTATATAAAACGGGAGGCCAGTGGACAAGGCCATTTCCAAGAACGCTCCTTCTGTAAGGCTGTTACCTCCAAGACCAAGCGCCGATTTGTGAAGAAGTTTGTGAAGACACAACTTTTCTCCCTATTCATCCAGGAAGCAGAGAAGAGCAGGAATCCTCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017680:ENSRNOT00000023807:10
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:
PF0345514=dDENN=WD(100=84.0)
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:
GTTGGTGATGAGAAAGACATCCT
R:
AGGATTCCTGCTCTTCTCTGCT
Band lengths:
318-746
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]