RnoEX0042124 @ rn6
Exon Skipping
Gene
ENSRNOG00000028627 | Hmcn1
Description
hemicentin 1 [Source:RGD Symbol;Acc:1564772]
Coordinates
chr13:67960982-67964007:-
Coord C1 exon
chr13:67963738-67964007
Coord A exon
chr13:67962283-67962449
Coord C2 exon
chr13:67960982-67961172
Length
167 bp
Sequences
Splice sites
3' ss Seq
TTTTTATTTCAACCAAATAGAGA
3' ss Score
4.23
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
Exon sequences
Seq C1 exon
TTCCTCCAGCCATTAGTTCTCATCAAAAGGAATATGTTGTTACTATGGATAAGCCTGTCTCCCTCTTGTGTGAGACAGAGGGCTCCCCACCACCTGACATCACCTGGCATAAAGATGGGCATGCTCTCACTGAATCCATCCGCCAGCGCATCCTGAACTCAGGAGCTCTGCAGATAGCATTTGCTCAACCCGATGATGCTGGTCAGTACACATGCATGGCCGCTAACATGGCGGGATCAAGCAGCATGAGCACCACACTCACCGTCCATG
Seq A exon
AGAATGAAAAGAAATCTACTATGGGCAAGGTATGGTAGCTAGCACTGGCCTGGAATCCGAATGCTTGGGGAGGCTTGGCAAGAGAATCAGGAGTTCAAATCCTTGACTAGTGAGTTCAAGACCGTCTTATGCTACAAGATGCCACAAAACAACAAAACTTGAAAGAG
Seq C2 exon
TACCACCTAGGATCCAAAGCACAGAAGTACACTACACCGTCAACGAGAACTCTCAAGTTGTTCTCCCGTGTGTCGCTGATGGAATCCCCACGCCTGCAATTCACTGGGAAAGAGACAGCGTTCTTCTAGCCAACTTGTTAGGGAAGTACACTGCCCAGCCATATGGAGAACTCGTCTTGGAAAATGTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028627_CASSETTE3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.225 A=0.833 C2=0.062
Domain overlap (PFAM):
C1:
PF0767911=I-set=WD(100=95.6)
A:
NO
C2:
PF0767911=I-set=PU(69.3=95.3)
Main Inclusion Isoform:
ENSRNOT00000030971fB6563
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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:
ACCCGATGATGCTGGTCAGTA
R:
TCCATATGGCTGGGCAGTGTA
Band lengths:
250-417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]