DreINT0046794 @ danRer10
Intron Retention
Gene
ENSDARG00000019342 | chrnd
Description
cholinergic receptor, nicotinic, delta (muscle) [Source:ZFIN;Acc:ZDB-GENE-030131-6665]
Coordinates
chr24:25544605-25545247:-
Coord C1 exon
chr24:25545102-25545247
Coord A exon
chr24:25544650-25545101
Coord C2 exon
chr24:25544605-25544649
Length
452 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
AAATAGTTTTTCCATGACAGAAA
3' ss Score
3.63
Exon sequences
Seq C1 exon
AATGTTGTGGCCGAAATGAAGAGGAGCGCCTCATCAATTATCTTTTTAAGGAGCGTGGCTACAACAAAGAGCTTCGGCCGGTCCAAAATAAAGATGAAACTGTAGATATTTACCTGGCTCTGACACTTTCTAATCTCATTTCCTTG
Seq A exon
GTGAGTGCTTAATATTGCTAATGTAGTGAGATAAAGTGAGATATTAAAGGGATAATTCACCCCAAAGTTAAAACGTACTCACTATTTAATCAATCTCAAGTGGTTCCAAATCATTATGAGTTTGTTTCTTCTGTTGAATGCTAAAAATATTTTGAAGAAAGCTAAAAAAAAAACAAATGTTTTACTTTTATAGTAGGAAAAAACAAATACTATGGAAGTCAATGGTTACCGGTTTCCACCTTTTTACAAAATATCTTCTTTTGAGTTCAACAGAAGAAAGAAAGTCGGACAGTTTTTGGAACAAGTAAAGAGTGAGTAAATGATGACAGATTTTAAGTTTTAGGTGAACCACCCCTTTAAAAGCAAGACATATTAGTATTTACTATTTTAATACTGCAATATTGTGCAGATGCAGTTGTTACCATTCTAACAAAATAGTTTTTCCATGACAG
Seq C2 exon
AAAGAGGTTGATGAAACATTGCTTACAAATGTGTGGATGGAGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019342:ENSDART00000015391:2
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:
PF0293118=Neur_chan_LBD=PU(18.6=83.7)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(6.3=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:
ATGTTGTGGCCGAAATGAAGAG
R:
ATGCTCCATCCACACATTTGT
Band lengths:
190-642
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]