RnoINT0131913 @ rn6
Intron Retention
Gene
ENSRNOG00000013123 | Scube2
Description
signal peptide, CUB domain and EGF like domain containing 2 [Source:RGD Symbol;Acc:1563998]
Coordinates
chr1:174461373-174462031:-
Coord C1 exon
chr1:174461909-174462031
Coord A exon
chr1:174461490-174461908
Coord C2 exon
chr1:174461373-174461489
Length
419 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
CTGTGTTTTGTCCTGTCTAGAAG
3' ss Score
8.97
Exon sequences
Seq C1 exon
ACACCAACGAGTGCAGCGTCAACAACGGAGGCTGCCAGCAAGTTTGCGTCAACACAGTGGGTGGCTATGAGTGCCAGTGTCATCCAGGGTACAAGCTCCACTGGAATAAAAAAGACTGTGTGG
Seq A exon
GTAAGAGGCTCCATCCTTCGATAGTTCCCATGTGGCCACAGGGTCACCCTGAGTCTGGAGGTTTGAGACTGTGCTTGCATACTCCACTGGGCCTAAAGGGCACCTTCCCCTGAAGCAGCGGCGGCTGGTCTTTAACAAGTCCAAAAACAGGAGATACTTCGCAGGCTCCTTGACCTTTAGCTCTGTGCTTCTGCATAGATTGGAGAGTCCTTCTGCATCATGGCTGCTTCTCTGCATGAGCACACAGCAGACATTGCCTCTCTGACCTTCATAGGAGGCAAGGCTTATGCCAGCCAGATTGGGCTGGGGAGGGAGGTCAGTTCTGCCTTCTTTTCTTGAGGCCTTTGGTGAGCTCCACTCCTTTCACACTTGGGTACGTGCTTTGTTTTCCTCAAGCGCCTGTGTTTTGTCCTGTCTAG
Seq C2 exon
AAGTAAAGGGCGTCCTGCCCACTAGCACGACACCCCGTGTGTCCCTGCACTGTGGTAAAAGTGGTGGAGGAGACAGGTGCTTCCTAAGATGCCATTCTGGCATTCACCTCTCGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013123:ENSRNOT00000052377:11
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:
PF146701=FXa_inhibition=WD(100=85.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCAACGAGTGCAGCGTC
R:
TGACGAGAGGTGAATGCCAGA
Band lengths:
238-657
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]