BtaALTA0007121-2/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000002252 | CHRNA2
Description
cholinergic receptor, nicotinic, alpha 2 (neuronal) [Source:HGNC Symbol;Acc:HGNC:1956]
Coordinates
chr8:75874056-75879491:-
Coord C1 exon
chr8:75879382-75879491
Coord A exon
chr8:75874935-75875065
Coord C2 exon
chr8:75874056-75874934
Length
131 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGA
5' ss Score
4.46
3' ss Seq
CTCTCCTCTCCTCAGTGCAGATG
3' ss Score
6.27
Exon sequences
Seq C1 exon
GAGTGGAGCGACTACAAGCTGCGCTGGAACCCGGTCGATTTCGGCAACATCACATCCCTCCGCGTCCCTTCGGAGATGATCTGGATCCCAGACATAGTCCTCTACAACAA
Seq A exon
ATGGGGAGTTTGTGGTGACCCACATGACCAAGGCCCACCTCTTCTCCTCGGGCCTGCTGCACTGGGCACCGCCTGCCATCTACAAGAGCTCCTGCAGCATCGACGTCACCTTCTTCCCCTTCGACCAGCAG
Seq C2 exon
AACTGCAAGATGAAGTTTGGCTCCTGGTCGTACGACAAGGCCAAGATCGACCTGGTGCAGATGGAGCAGACGGTGGACCTGAAGGACTACTGGGAGAGCGGCGAGTGGGCCATCGTCAACGCCACGGGCACCTACAACACCAAGAAGTACGACTGCTGCGCCGAGGTCTACGCCGACGTCACCTACTACTTCGTCATCCGGCGCCTGCCCCTGTTCTACACCATCAACCTCATCATCCCTTGCCTGCTCATCTCCTGCCTCACCGTGCTCGTCTTCTACCTGCCCTCCGACTGCGGCGAGAAGATCACCCTGTGCATCTCTGTGCTGCTCTCACTCACCGTCTTCCTGCTGCTCATCACCGAGATCATCCCGTCCACCTCGCTGGTCATCCCGCTCATCAGCGAGTACCTGCTCTTCACCATGATCTTCGTCACCCTGTCCATTGTCATCACCGTCTTCGTGCTCAATGTCCACCACCGCTCCGCCAGCACCCACAACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002252-7-9,7-8,7-7-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.044
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.6=33.9),PF0293211=Neur_chan_memb=PU(86.7=63.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGGAGCGACTACAAGCTG
R:
TTCTTGGTGTTGTAGGTGCCC
Band lengths:
256-387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development