RnoINT0036341 @ rn6
Intron Retention
Gene
ENSRNOG00000014427 | Chrnb4
Description
cholinergic receptor nicotinic beta 4 subunit [Source:RGD Symbol;Acc:2351]
Coordinates
chr8:59615220-59617048:-
Coord C1 exon
chr8:59616939-59617048
Coord A exon
chr8:59616211-59616938
Coord C2 exon
chr8:59615220-59616210
Length
728 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TATGTCCTGCCCTACCCCAGTGC
3' ss Score
7.18
Exon sequences
Seq C1 exon
GAATGGACTGACTACCGCCTGGCCTGGAACAGCTCCTGCTATGAAGGGGTGAACATTCTGAGGATCCCCGCAAAGCGTGTCTGGTTGCCTGACATCGTGTTGTACAACAA
Seq A exon
GTGAGTGACAGGTGACCAAAGCCTAGAGTCAGGCCAGGGCAGAAGGTCAGCCTTCAGGGGTGTCCATATCTGAGTGCAACCCCAGCCTTCTTTCTTTCTTTTCTTTTTTTTTTTTTTTTTTTTGGAGCTGGGGACCGAACCCAGGGCCTTGTGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCACCTCCCCCCCAGCCTTCTTTCTACATTTCCCTCAGACTTCTAGGTCATGGAGCTAGAGAGATAGAAGTGATGGAGACAGAGTCTTCTGAGTGGGAGGGTAGGAAGGGAGGTCCAGAGGCCCTGTGCTATTCAACACAGCGAGCACTGGGCTTGCCTTTGGACCCTCAGGCCAGTGCCCTTACTGACCATCTTTGCCTCCCTATTCTGTCTTTTTGTGACTTGGTGGCTTTGGCAGTGTCGTTGGCTGCAACATTGACTTCTGTGTGCAGTTCATGAGAGCAGCTCAGTCAGAAGGATCAGGAACCCAGGAGTTTGAAATCAGTCTAGGCAAAGAGAACAAGAGTGAGGGAGAAAGAATGGGTAGCCAAGGATCAAACAAGACAAGGGTCGATATCTCTTCTCTCCTGCTTAATAGTGTGAGGGGCTTGACGGAGTCCTCCAGCTTCCCTAAGCCTTGCTGTTCAATCTTTCTGAGAACAGGCCGGGCTTCCTCTGTAGATTTGTGATGTTCTCCTCTATGTCCTGCCCTACCCCAG
Seq C2 exon
TGCCGATGGCACCTATGAGGTGTCTGTCTACACCAACGTGATTGTGCGTTCCAATGGCAGCATCCAGTGGCTGCCCCCTGCTATCTACAAGAGTGCCTGCAAGATTGAGGTGAAGCACTTTCCCTTCGACCAGCAGAACTGCACCCTCAAATTCCGCTCCTGGACCTATGACCACACGGAGATTGACATGGTTCTTAAGTCGCCCACGGCCATCATGGATGACTTCACCCCCAGTGGTGAATGGGACATTGTGGCCCTCCCAGGACGGAGGACGGTGAACCCTCAGGACCCCAGCTACGTGGACGTGACCTATGACTTCATCATCAAGCGCAAGCCGCTCTTCTACACCATCAATCTTATCATTCCTTGTGTGCTCATCACCTCGCTGGCTATCCTGGTCTTCTACCTGCCCTCCGACTGTGGGGAGAAGATGACGCTCTGCATCTCTGTGCTGCTGGCACTCACGTTCTTCCTGCTGCTCATCTCCAAGATCGTGCCTCCCACCTCCCTTGACATACCGCTCATTGGCAAGTACCTCTTGTTCACCATGGTGCTGGTCACCTTTTCCATCGTCACCACTGTGTGTGTCCTCAATGTGCACCACCGCTCACCCAGCACTCACACCATGGCATCCTGGGTCAAGGAGTGCTTCCTGCACAAACTGCCCACCTTCCTCTTCATGAAGCGTCCCGGTCTTGAAGTCAGCCTGGTCAGGGTCCCTCATCCCAGCCAGCTGCACTTGGCCACAGCTGATACTGCAGCCACCTCTGCCTTAGGCCCCACCAGCCCATCCAACCTCTATGGGAGTTCCATGTACTTTGTGAACCCTGTCCCTGCCGCTCCTAAGTCTGCAGTCAGCTCCCACACAGCAGGCCTCCCCAGGGATGCCCGTCTGAGGTCCTCCGGGAGGTTCCGGGAAGATCTACAGGAAGCATTAGAGGGTGTCAGCTTCATCGCCCAGCATCTGGAGAGCGATGACCGAGATCAAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014427:ENSRNOT00000019458:4
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=0.003
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.5=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(54.4=33.8),PF0293211=Neur_chan_memb=PU(86.5=63.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTTGCCTGACATCGTGTT
R:
AAGTCATAGGTCACGTCCACG
Band lengths:
348-1076
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]