DreINT0046768 @ danRer10
Intron Retention
Gene
ENSDARG00000022532 | chrnb1l
Description
cholinergic receptor, nicotinic, beta 1 (muscle) like [Source:ZFIN;Acc:ZDB-GENE-060811-1]
Coordinates
chr7:22320250-22321016:+
Coord C1 exon
chr7:22320250-22320359
Coord A exon
chr7:22320360-22320907
Coord C2 exon
chr7:22320908-22321016
Length
548 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGA
5' ss Score
5.26
3' ss Seq
GTTCTCTTTCTGTTTAATAGTAA
3' ss Score
6.46
Exon sequences
Seq C1 exon
GAATGGACTGACTACAGATTGTCTTGGAATCCTGAAGATTATGACAAAATTGATGTTGTGCGCATTCCTCCTGTAAAAGTGTGGCGTCCAGACATCTACCTTATCAACAA
Seq A exon
GTGAGAACGTCCTGTTATAATATGGCACACTGATGAGCATTTAAAAGATTTTGTTTAGGTTGTGCATGATTAGCAGCATTTCTAATCAAGTAATTTTTACACTTTCATACTCAAAGGGATAGTCCATAAATTACATTTCATTTATCCACCCTCCACTTGTTCTAAATGCTTTCTTTCTTTTTTCTTTCTTTTTTTAAACATTTCTTTCTTTTGTTGAACACAAAGGAAGATATACCAATAAATATAAGTCAAACTAACCTTTGGCTTACCTAATTTTTTTTTCCTACTATGGATATCTGGCTGGTTTTCCCCTCAACATTCTTCAGAATATCTTGTTTTGTGTTCAACAGAAAAACAAATAGATTTTTTTTAAATAAAGCACAACAGTTCCACCTAATAATCGTTTTTATATTCTTCTAAAGACAAAATAATGGGCTAAATTGAAAATCTGATCTTTTTATACCATGAATTGGCTGTTATGAAACAAAAGCTGCAAAGGACATAATGATGTTAGGACGTGATAGAGATGTTCTCTTTCTGTTTAATAG
Seq C2 exon
TAATGACGGTCAGTTTGACGTTGCGCTGTATGTGAACGTGCTCGTGAGGAGTGATGGAACTGTCTCCTGGTTGCCACCAGCCATCTACCGCAGCTCCTGCTCCATAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022532:ENSDART00000149144:4
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(17.1=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(17.1=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:
TGGACTGACTACAGATTGTCTTGG
R:
CAGGAGCTGCGGTAGATGGC
Band lengths:
206-754
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]