HsaINT0035172 @ hg19
Intron Retention
Gene
ENSG00000129749 | CHRNA10
Description
cholinergic receptor, nicotinic, alpha 10 (neuronal) [Source:HGNC Symbol;Acc:13800]
Coordinates
chr11:3691026-3692614:-
Coord C1 exon
chr11:3692482-3692614
Coord A exon
chr11:3691172-3692481
Coord C2 exon
chr11:3691026-3691171
Length
1310 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
CCTCCTTACTGACCCTCCAGAGT
3' ss Score
7.65
Exon sequences
Seq C1 exon
TAATTTTGCCCTAGGTCTGGCCAGGAGGCCTCACATCCAGAGACCTGCCCCCGCTCTTGCAGTGCCAGGGCCATGGGGCTCCGGAGCCACCACCTCAGCCTGGGCCTTCTGCTTCTGTTTCTACTCCCTGCAG
Seq A exon
GTATGAAGCTCAGTACACCAGCCCTGGCCTCTCCTGGTGGTGCTACTATTCCTGTTCTCCCAAAATCCCTTTCCATGTAGTCTCTCTTGTGTTTCTCCTCAGTACCTGTTCTGAGAACAAGCTCTCTATTTGGGGAGTGTGGAGGAGAGGGGTGCTGAAGTGCGTGAGAGGAGACTTGCCTGGCTAGGGTGGAAACAGTGAGCGGGGAGCTTCCAGAGACAGGGCTGGGAAAATCAGAGGGGCCAGATGTTGAAGGGCCTGCCGGCCAGGCCAGGTCTTTCTCCTGCAGATGACGGGGAGCACTGAAAGGTTTCAGCAGCATACTAGCCTGGTCAGATGTGCATGCTTAAAAGCGTGGTCCTGGGGCATGGGAGGGGTAGAAGAAGGTGAGCCTTTGGGGAAAGGGAGACAGTGAAGGGAGGGCCCTGACCTGGAGGGGAGAGGGTAGACTCAAGACGATGTTTCGCAAAATCTGGAGGATTTGAATGATCTGACAGGATCTGGAGATTAACTGGATTCCCCGAGGAGGAGGCAGCAGAGGGAGAAGGGAGGGATAATTCCCAGATTTCCAACTAAGGTCACTGTTGAAGCTGAGGGCATGCTATTTGCTGAGATAGGGAACATGGGATAGGAAGCAGGTTTCAGAGCATGGAGGGAGGAAGCGAGTTCATATTTTGGACCCTCAGAGTTGAAGGTGCCTGTGGGAAACTCAGGAGTGGACTGTACTCTATTGGGGTCTGGAGCTCAGGAGAAAAATCTGGGATGAAGAAAAAGATGGGAGCCAAGGACAGGATTCATGGGAACAATGTTTAGGTCAGGGATTGAGGAAAATTTGTGTCAGTAAAGCCTGGGGAAGTGTGTTTTCAGAGTGAGGGAGTGTTCCATCGCATCAGAAGTTTTGAAGAAACCAGCTCGAGATGGAGAAGTGGAAACAGGTTTGAGAGATACTGGAGGGGGCAGAGCAGTGGGGTTTAGAATCCCTGGGTGAAAGTCTGGACTCTTGTGGCTTATTTGGGCCCCTCTAGCATTTGTGGAGAGGCAGGCAGACTCCAGGTCCTTGAAAAGGGGAGGGTGGAGGAGAAATTTGTCAGCCTGGCGCCAGAAGATAGTACCAGTTCACTCCATGGCCTTTACCTCATGTGTCCCTGCAGGCAGGCCAGGGAGGAACTAGAGCCACAGCTAGAGCAAGAGAAGGCAGACACCAGGAGGACACTCATAAGGACAGGGCCCCAGCCCTGGGAGTGGAGGGTGTGAGCAGAGGCCCTGGGACTAGGGCCTGGGATGGACAACCCTCCTTACTGACCCTCCAG
Seq C2 exon
AGTGCCTGGGAGCTGAGGGCCGGCTGGCTCTCAAGCTGTTCCGTGACCTCTTTGCCAACTACACAAGTGCCCTGAGACCTGTGGCAGACACAGACCAGACTCTGAATGTGACCCTGGAGGTGACACTGTCCCAGATCATCGACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000129749-CHRNA10:NM_020402:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0293118=Neur_chan_LBD=PU(18.8=79.6)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTAGGTCTGGCCAGGAGG
R:
CATGTCGATGATCTGGGACA
Band lengths:
270-1580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)