Special

BtaINT0038426 @ bosTau6

Intron Retention

Gene
Description
Bos taurus cholinergic receptor, nicotinic, gamma (muscle) (CHRNG), mRNA. [Source:RefSeq mRNA;Acc:NM_174273]
Coordinates
chr2:120990968-120991557:+
Coord C1 exon
chr2:120990968-120991065
Coord A exon
chr2:120991066-120991356
Coord C2 exon
chr2:120991357-120991557
Length
291 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CCCCCGCCTGCTGCCTGCAGAAA
3' ss Score
9.45
Exon sequences
Seq C1 exon
GTCCCAGACCTACAGCACCAATGAGATCAATTTGCAGCTGAGCCAGGAAGACGGTCAGACCATCGAATGGATTTTCATCGACCCCGAGGCCTTCACAG
Seq A exon
GTAATGGCCATCCAAGGTCCATGCAGGACCTGGCTGTGGGGGCGGAGCCAGACCGAGACCACGCCCCCCTCGGTGTCACTCAAGGTGAAAGCTCCCATAAACCATAAAATGCATGTCATTTAAAGGCCCAGCAAAGCTGATCTTCCTCACTGATAGTGACTCTGGTTTTGGTGGGAGGGGCGTCAAGCATCCTTCCCCGCACAGTGCTGCTCCTGTGGGCACTGGGTTCCGTGGGCTGCCGGGATCAGCTCGCCCCCAGTCCCTGTGCCCACCCCCGCCTGCTGCCTGCAG
Seq C2 exon
AAAATGGGGAGTGGGCCATCCGGCACCGGCCAGCCAAGATGCTGCTGGACGAGGCGGCCCCAGCCGAGGAGGCAGGCCACCAGAAGGTCGTCTTCTACCTGCTCATCCAGCGCAAGCCCCTCTTCTATGTCATCAACATCATCGCGCCCTGTGTCCTCATCTCCTCCGTAGCCATCCTCATCTACTTCCTTCCTGCCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000045943:ENSBTAT00000053164:6
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=0.000
Domain overlap (PFAM):

C1:
PF0293118=Neur_chan_LBD=FE(15.3=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(18.1=57.4),PF0293211=Neur_chan_memb=PU(8.5=30.9)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
ALTERNATIVE
Zebrafish
(danRer10)
LOW PSI
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCAGACCTACAGCACCAAT
R:
CCTTGGCAGGAAGGAAGTAGA
Band lengths:
298-589
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]