BtaINT0038361 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014056 | CHRNA6
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MQ06]
Coordinates
chr27:37198339-37199526:-
Coord C1 exon
chr27:37199417-37199526
Coord A exon
chr27:37199318-37199416
Coord C2 exon
chr27:37198339-37199317
Length
99 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGC
5' ss Score
5.38
3' ss Seq
GTGTCTGATTTACTTTGCAGTGC
3' ss Score
8.37
Exon sequences
Seq C1 exon
ATCTGGAATGATTATAAACTGCGTTGGGACCCCACGGAATATGACGGCATTGAGACTCTCCGTGTTCCTGCCGAGATGATCTGGAAGCCCGACATCGTTCTCTACAACAA
Seq A exon
GTATGCGCACCCACAGCCAGTCTTTTTCCAAAGCTGGCTTTGGTGCAGGTGGGCCTGAAGCGCGGGGGAGTCACTAACAGTGTCTGATTTACTTTGCAG
Seq C2 exon
TGCGGTCGGCGACTTCCAAGTCAAAGGCAAGACAAAAGCTCTTCTTAAATACGATGGCATGATAACCTGGACTCCACCAGCGATTTTTAAGAGTTCCTGTCCAATGGACATCACTTTTTTCCCTTTTGACCATCAAAATTGTTCCCTGAAATTTGGTTCCTGGACTTACGACAAAGCTGAAATTGACCTTCTAATCATTGGCTCTAAAGTGGACATGAATGAGTTTTGGGAGAACAGCGAGTGGGAAATTGTCGACGCTTCTGGCTACAAGCATGACATAAAGTACAACTGTTGTGAAGAGATATACACAGACATCACCTACTCTTTCTACATCAGGAGGCTCCCAATGTTTTACACCATTAATCTGATCATCCCCTGCCTCTTTATCTCGTTCCTCACTGTCTTGGTCTTCTACCTCCCTTCTGACTGTGGTGAAAAGGTGACTCTTTGCATTTCAGTGCTGCTTTCTCTGACTGTGTTTTTGCTGGTGATCACAGAAACCATCCCGTCCACGTCTCTCGTGATCCCCCTGGTGGGCGAATACCTGCTCTTCACCATGATCTTCGTCACCCTGTCCATCGTGGTCACGGTGTTTGTGCTGAACATCCACTATCGTACCCCGACCACTCACAGCATGCCCACGTGGGTGAAGGCGGTCTTCCTCCGGCTGTTACCCCAGATGCTGATGATGAAGAGGCCTCTGGACAAGATGAAGGAGACAGGAGCTCATAGAAACCCCAAAGGAGTCTCCAGTAGGCCTGCCAAAGTCAAGTTTGAGCATCACAAAGAGCCCAGACTTCTTAAAGAATGCTGCCACTGTCATAGATCTGGTGAGCCTGCCACCAGCAAGAGACGATTAAGTCATCAGCCTTTACAGTGGATGGCTGAAAATTCGGAGCTCTCGCCTGAAGTCGAAGATGTAATCGATAGTGTTCATTTCATAGCGGAAAACATGAAGACCCAAAATGAAACAAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014056:ENSBTAT00000018679:4
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=0.064
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.6=35.2),PF0293211=Neur_chan_memb=PU(86.1=62.4)
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:
CCCACGGAATATGACGGCATT
R:
AAAAATCGCTGGTGGAGTCCA
Band lengths:
168-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]