DreINT0046761 @ danRer10
Intron Retention
Gene
ENSDARG00000069660 | chrnb1
Description
cholinergic receptor, nicotinic, beta 1 (muscle) [Source:ZFIN;Acc:ZDB-GENE-070821-4]
Coordinates
chr7:22291596-22292369:+
Coord C1 exon
chr7:22291596-22291781
Coord A exon
chr7:22291782-22292145
Coord C2 exon
chr7:22292146-22292369
Length
364 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
AAGCTATCTTTTCGTTTCAGGGG
3' ss Score
7.66
Exon sequences
Seq C1 exon
AGAGTGGAGAATGGCACATTCGTCACAAAGTTTCTAGAAAGAATGTTCGAGAGGATCTGTATGAGGACATCACCTTCTACCTGATCATTGAGAGGAAGCCCATGTTTTATGTTGTTAACATCGTCCTACCCTGTATCCTGATCACCATCATTGCCATCTTTAATTTCTACTTGCCACCCGATGCAG
Seq A exon
GTAATGGGTCTTAAATTTGTTTTTGCTTCTCTATTGCCAGAATTAATTAGAACTTTTAGAAAATCAATATGGCCAGAAAATGAAGGATCATCAATTCAAATGGCCTTTTTATTTGATTTTTATAGTCCTTGAACTAATAAATGTCTCATTACAGTAAATAACAGATATTTATACATCTATGGATAAGTTCCTGTGACAAAAAGATTTTACTGGTTTAACGTTTACCAGATCATAATTCTTAGCTGGTCTATTATTAACAACATGTTAATGTACAATTAACCCAATCACAAAAAAACACACATTTAGACTAGTGTACACTTGTATAAGCATGAATGGCTCAAGAGAAGCTATCTTTTCGTTTCAG
Seq C2 exon
GGGAGAAGATGGGTCTTTCCATCAATGTACTGCTGACTTTGACTGTCTTTCTGCTTCTGCTGGCCAACAAAATCCCAGAAACATCTCTGGGTGTTCCTATTATTGTCAACTACCTGATGATAACCATGATCCTGGTCACCTTTTCTGTCATCCTCAGTGTCGTGGTGCTCAACCTTCACCATCGCTCACCAAACACACACCAAATGCCCCTCTGGGTGCGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069660:ENSDART00000101528:7
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=PD(15.7=52.4),PF0293211=Neur_chan_memb=PU(9.3=34.9)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(31.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
TGGCACATTCGTCACAAAGTT
R:
CACCACGACACTGAGGATGAC
Band lengths:
342-706
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]