DreINT0046806 @ danRer10
Intron Retention
Gene
ENSDARG00000034307 | chrne
Description
cholinergic receptor, nicotinic, epsilon [Source:ZFIN;Acc:ZDB-GENE-040808-32]
Coordinates
chr5:37846136-37847165:-
Coord C1 exon
chr5:37847121-37847165
Coord A exon
chr5:37846246-37847120
Coord C2 exon
chr5:37846136-37846245
Length
875 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
TTCACATTCCCGCTCTTTAGCAG
3' ss Score
5.77
Exon sequences
Seq C1 exon
AATGAAAAAGAAGAGACTTTAACTACAAATGTTTGGATTGAGATT
Seq A exon
GTGAGTATCTTACACAACCTCCCTTTTCTTAAGTTGCATTGTAATAAATGTAGCAACATATATTTTTTATTTTATAGGTTTTGTTATTTTGATGAAAAAAAGCCAAAACATGCATAATAATAAATAAATAAATTAAAAAAAAATCTAAGCTTCGTCCTAGCAATTGATCTCTCTGTTTTCTTTGCAACTTGTTTAAGCGAATAGAGGCTGATCTGAATGCGAGTGTTCAGTCAATTGTAAGGGTGTGTTCACACCTGGCAGGTTTGGTTTAAAAAATGTTGTCTGGGATTGCTCTGCTTATGCTGTTTGTTTAAATGTATTTGAGAACTGCCATTTGAGCCCCGTTGTGCATCAGACAAGTTGTCCACTTTCATTCTCAATTCCATTCTCAATCCACTTCCAAACTGAATTCTGGGGAATTTTGACTGAAAAATGAACGTAGCACACCAAACAAATCTGAAATGAACCAACAGGACATAATGTCCAAAAATGCAACTATATAAACGACTGAATGTTTATATAAATGTTTTTAGAAGCATTTAGTACTTTCATAAAATGTCACAAAAGCAATGCAATAGAAGAAAGAAGGGAAAAATAGTTCTCAAATTTCTTTTTTACAGTTTTCTAAATAATTTGTTTGCATGTCTAAATAACTATTGTAATGTCAGATATTTTACCAACATATGAAGAGCAGGCTTTTTTTTCCTTTTGCTTATTCTTTTTCATATTTAATCTTCTGAACAGTTTTCTCAACTATTTCTCTACTCATTCAGTCTAATCTAAAAGATTTTAGCCAGTACTTATTTTGTCTGCACCTATTCTCTTATTTGTCCTGCTAATACCTGCTTTTCTTCTTTCACATTCCCGCTCTTTAG
Seq C2 exon
CAGTGGCATGATTATCGTCTTGCGTGGAACACATCTGAGTATCATGACATTGAGCAAATTCGTGTGCCATACTACACAGTGTGGCTACCAGACATAGTATTGGAAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000034307:ENSDART00000136428:3
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=FE(6.5=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(16.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]