RnoEX0073059 @ rn6
Exon Skipping
Gene
ENSRNOG00000060412 | RT1-M4
Description
RT1 class Ib, locus M4 [Source:RGD Symbol;Acc:1562593]
Coordinates
chr20:2044525-2047470:+
Coord C1 exon
chr20:2044525-2044803
Coord A exon
chr20:2046951-2047226
Coord C2 exon
chr20:2047340-2047470
Length
276 bp
Sequences
Splice sites
3' ss Seq
TTCTCCTCTGATCTCCTCAGATC
3' ss Score
10.27
5' ss Seq
GGGGTAAAA
5' ss Score
2.56
Exon sequences
Seq C1 exon
AGTCTCACACTGTCCAGTGGCTATTCGGCTGTGACATAGGGCCAGACCGTCGCCTCCTCCGTGGGTATAAGCACGTTGCTTATGAAGGCCAGGATTACATCTCTCTAACTGAGGACCTGCGCTCCTGGGTTGCGGTGGATACCGAGGAGGCTCAGATCACCAGGCGCAAGTGGGAGGCATCTGGTATTGCTACATCATGGAGGTCTTTCTTGGAGGGCAGGTGCGTGAAGTGGCTTCTCAAATACCTGGATAAAGGGAAGGAGATGCTGCAGCGTGCAG
Seq A exon
ATCCCCCCAAAACAAACGTGGCTCATCACCCTAGACCTGAAGGTGATGTCACCCTGAGGTGCTGGGCCTTGGACTTCTACCCTGCTGACATCATCCTGACTTGGCAAAGGGATGAGGAGGACCTGACCCAGGACATGGACCTTGTAGAGACCAGACCTACAGGGAATGGAACTTTCCAGAAGTGGGCATCTGTGGTGGTGCCTTCAGGAGAAGAGCATAGATACACATGCCATGTGCTGCATGAGGGGCTGCTTGAGCCCCTCATCCTGAGATGGG
Seq C2 exon
AGCCTTCACCCTCCCCCACCACTCCCATCATGGGGATCATTGCTGGTCTGGTTCTCCTTGGAGTTTTGGTCACTGGAACTGTGGCTGCCATTATGAGGAGGAGGAAGAGTGCAGGTAAGGATGGTGTTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000060412-'3-4,'3-3,4-4
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=0.203 C2=0.047
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(49.7=94.7)
A:
PF0765410=C1-set=WD(100=90.3)
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTTGCTTATGAAGGCCAGG
R:
GCCACAGTTCCAGTGACCAAA
Band lengths:
292-568
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]