DreINT0046769 @ danRer10
Intron Retention
Gene
ENSDARG00000022532 | chrnb1l
Description
cholinergic receptor, nicotinic, beta 1 (muscle) like [Source:ZFIN;Acc:ZDB-GENE-060811-1]
Coordinates
chr7:22320908-22322057:+
Coord C1 exon
chr7:22320908-22321016
Coord A exon
chr7:22321017-22321909
Coord C2 exon
chr7:22321910-22322057
Length
893 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAT
5' ss Score
6.75
3' ss Seq
CTGTGTCTCTGGCCCTATAGGTG
3' ss Score
10.52
Exon sequences
Seq C1 exon
TAATGACGGTCAGTTTGACGTTGCGCTGTATGTGAACGTGCTCGTGAGGAGTGATGGAACTGTCTCCTGGTTGCCACCAGCCATCTACCGCAGCTCCTGCTCCATAGAG
Seq A exon
GTACATGTATAATATTTTCCGGCTTCAAATAGACTTTCTGTAATTGCACTAAATGAATGATTTTTGCTTATTTTATGCAGAACTTGAATTTAACTAATTAAAAATTTAACCTTCATTGAACCTTGAATCTTATTTTAACATGAATCAATCTTGGCTAAATGCACTTTTTATGGATTAATCATTAATGTATTGCCAATGTGTGAATAGCTTGTAATACTCATGAGAACCTCTTTTTTATTATGTCAATGTGTCATGCATACAAAAAAGGTTCATTCAAACTATAGCCAGATCTATCCATATGTATCTCTATTCTGCGAAATTGCAGAGCTTATGCAAAATCATCTAAATCAGTATGATCACATGCTTTGTTTATTGCTGTTTCTGGTCTACCAAATTAGTGCAGCACATATTTGCATAATTAATCTAAATATCTCTCTGTTATTGTATTTCCTTCTCCTTTTTAACTTTCCCATTCTCTTGTATGTTACATGTGCATGAGCGGTAAGTTTTTGGCTGCAGTTCACCTCACAGCCACTGGTGTTGCTAATAACAATACATAAAGCCCATTTAACAGTGTTATAATTGTGTTGTACTCCCTAATTAATTTCAGGGGATAGTTCACCCAAAAATGTTACATCTATTATTAATTTGTTGCAAAGAATTTCTTCTGTTCAACACAAATGAAGATATACCGAGGAATGTTGGAATAAGGTAGTTATTGACTTCCATTTTACATTTTGTTTCTACTATATATGTCAATGGCTGTATTTTCCCAACATTCCTCAGTATATTTAGTTTTTTGTTCAACCAACGAACAAAACAGATGAAATTATTCACTTTAGTTTGAGGTGAAACTTTCACTGTAGTTCAAAGCTGTGTCTCTGGCCCTATAG
Seq C2 exon
GTGGCGTACTTTCCATTTGACTGGCAGAATTGCTCAATGGTGTTTCGTTCCTACACATATGATTCCTCAGAAGTGGACCTACAGTATGGTCTAGATGAAGACGGAAATGAGCTCCATGAAATAGTGATTGATGAGAATGCTTTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022532:ENSDART00000149144:5
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(23.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGTTTGACGTTGCGCTGTA
R:
CAGTGAAAGCATTCTCATCAATCACT
Band lengths:
248-1141
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]