RnoINT0036326 @ rn6
Intron Retention
Gene
ENSRNOG00000014698 | Chrnb1
Description
cholinergic receptor nicotinic beta 1 subunit [Source:RGD Symbol;Acc:2349]
Coordinates
chr10:56392290-56393696:-
Coord C1 exon
chr10:56393473-56393696
Coord A exon
chr10:56392463-56393472
Coord C2 exon
chr10:56392290-56392462
Length
1010 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ATAATATGTCACTTCTATAGATC
3' ss Score
7.97
Exon sequences
Seq C1 exon
GAGAGAAGATGGGGCTCTCCATCTTTGCCCTGCTGACCCTCACTGTGTTCTTGCTGCTGCTGGCCGACAAAGTGCCTGAGACCTCCCTGGCGGTCCCCATCATCATCAAGTATCTCATGTTTACCATGATCCTTGTCACCTTCTCAGTTATCCTTAGCGTTGTGGTCCTCAACTTGCACCATCGCTCACCCCACACCCACCAAATGCCCTTTTGGGTCCGCCAG
Seq A exon
GTAAGAGAGCTCTTCTCATCCAATCTGCCTTGATTCCTGATTTTACAATCAACCAGGTGTGGGAGAAGATAAGGCTAGCCTGGGCTACATAGTAAGATTCCCATCTGCAAATGACAGAAGGAATAAAAGAAGGGAGGATAGGCATCCTTGCATTTGGTTTTGTGTCCAGATGCTGCTCCTGCCTTCCACCAACCTGGACTTGGCGTTTAGAGCTTGGGAGAGCTGCAGCTGGCATAGTGAAGGGCGGGGCCCACTGGCTGGGAAAGCATCACACAATTATTTTTCCTTCCTATTCTCATCATTTCATAGATCCAACATGTTCTTCATCCATGTAACTCATTTGCACACCTAAGGAAACATTCTCAGGTCTAGATGCCATCAGGGTAGAAGACCTTGGACCCTCAAACTTTCAAGATGCCTCCCAACCTGTTAAAGACCTTTTTTTTTTTTTTTACTTCTGAGACAGAGTTTCTCTCTGTAGTCTTGGTTGTCCTGGAACTTGCTCTGTGTACCAGGCTGGCCTCAAGATCCTCCTGCCTTTGCCTTCCAAGTACTGGATTATTGTGGGCCACTACATCTGACCTAAGAGAGCTCTTTTCAACTGTATATACATTATATATGTGGAGTTATTCACACACACACACACACACACACACACACACACGTTTTACATGTATGAATGTTTGTTTTGTGTATGCATATATGCACTACCTGTGTGCCTGGTGCCTGAGGCCAGAAGCACATCAGACTCCCTGGAACTTAGACTTACAGATGGCTGTGAGCCACCATGTGGTGCTGGAAATCGGGGTCCTGCTCTTCCACAGGACCCCGAAGAGCAGTCAGCACTCTTAACAGCTGAGCCTTTATTAAGCTGTGCAGGCTTTGCCAGTGTGCAGCTCAGGAGTACCAAGAGCGCATGTACAGGGATGGACACCTGGAGAGGGACTAGTTAGCTGCTTCCTTTGTGGTCTGAAATCATTAAAGCCTTCTATAATATGTCACTTCTATAG
Seq C2 exon
ATCTTCATTCACAAGCTCCCTCCATACCTGGGTCTGAAGAGGCCCAAACCCGAGAGAGACCAACTACCCGAACCACATCACTCCTTCTCCCCAAGGAGTGGCTGGGGCCGAGGAACTGATGAATATTTCATACGGAAGCCTCCATGTGATTTTCTTTTCCCTAAACTTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014698:ENSRNOT00000019947:8
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=0.224
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(31.4=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(24.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGAAGATGGGGCTCTCCA
R:
ATTCATCAGTTCCTCGGCCCC
Band lengths:
348-1358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]