RnoEX0073070 @ rn6
Exon Skipping
Gene
ENSRNOG00000042905 | RT1-T24-4
Description
RT1 class I, locus T24, gene 4 [Source:RGD Symbol;Acc:1598233]
Coordinates
chr20:3193636-3196139:+
Coord C1 exon
chr20:3193636-3193932
Coord A exon
chr20:3195412-3195558
Coord C2 exon
chr20:3195792-3196139
Length
147 bp
Sequences
Splice sites
3' ss Seq
GGACTCTATGCAATATACAGCAG
3' ss Score
0.47
5' ss Seq
CTGGTAATG
5' ss Score
5.67
Exon sequences
Seq C1 exon
GATCACACTCTCTGCACTATTCTTACTCAGCCGTGACAGAGCCGGGCCCAGGAGTTCCTGCATTTTTTGCCAGTGGCTTTGTAGATAACCAGCCCTTCATCCACTATGACAGTAGGAAGATGGAGGCAGAGCCTTGTGCTGACTGGCTGAGGGAAAATCCATATTACTTTGATGAGGAGACCCAGGTTTTCACCAATCGGATGAAGATCTTCCAGTTGAGCCTGAGAAACATTCAGCAATACTACAACAGCTCTGGTGACCGGAGTCAGAGAGCAGATGGCTTCCACCAGCAAGCAG
Seq A exon
CAGCCACCTTCATTGCTGGCTACACCAAGCACAAGTGGCAAAACAATGAGTACTGGCTGGAGAGAGAGAAGACCTACTTGGAGAAGGAGTGTGTCCTGTGGCTAAAGAGATACTTAACTATGGGAGGAGAGAACTTTACCCGAACTG
Seq C2 exon
GGTCCTCAGGGGTGTCTCCCACTTCTGCTTTTCCACTGGAGACACCAGCGTCTGTCTGTCTGTCTGCTGCAGACCCTCCACAGACAACAGTGACACACCACCCCAGACCTGAAGGTGATGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGGGAGGACCTGACCCAGGAAATGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTGCCTCTTGGGAAGGAGCAGAAGTACACATGCCATGTGGAGCATGAGGGGCTGCCTGAGCCGCTTACCCAGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000042905-'3-7,'3-6,4-7
Average complexity
C2
Mappability confidence:
88%=100=75%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.060 A=0.065 C2=0.312
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(52.9=99.0)
A:
PF0012913=MHC_I=PD(46.5=94.6)
C2:
PF0765410=C1-set=WD(100=90.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGACTGGCTGAGGGAAAAT
R:
TCACTGTTGTCTGTGGAGGGT
Band lengths:
253-400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]