RnoINT0131893 @ rn6
Intron Retention
Gene
ENSRNOG00000010617 | Scube1
Description
signal peptide, CUB domain and EGF like domain containing 1 [Source:RGD Symbol;Acc:1309015]
Coordinates
chr7:124516438-124517592:-
Coord C1 exon
chr7:124517488-124517592
Coord A exon
chr7:124516555-124517487
Coord C2 exon
chr7:124516438-124516554
Length
933 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
GGAATTTTGGCTTTCCCCAGATG
3' ss Score
7.12
Exon sequences
Seq C1 exon
ACTCAGAAACCAGCTACATCCTGAGCTGTGGTGTTCCAGGTCTCCAGGGCAAGGCACCACCGAAGCGCAATGGCACCAGCTCCAGTGTGGGGCCCGGCTGCTCAG
Seq A exon
GTAACCGTGGGCGTCCACTCTGAACAACTGAATAGCCCTTTCTGTTTTTATCCAGTGCATGAGTCAGGAGAGGGACGACGATTGCTCAGGGAAGCATTTCCCTTTCTGGGCCCTGCCCATCACGGCTTAGGATTCTGGAAACATGAGAGGGCCAGGACCTTGCAGCCTGGAGGCTGAGGCCCAGCCCACAGTCAGGGAGCCAGAAGAGGGCCTTTCTAACTGAGGTCACAGTAGTATAGTGATTTAGTAACTGCCAAATGTTAAGATCCCACAGCCCTCTGCTACTGCCATTGTTTGAGACAGGGGCTCATGTAGCCCAGGCTGGCCTTGAACAAGCTATGTAGCAAAGGATAGCCCTGATCTTAGGCCACAGAGATGCCCTTGAACACTATGTCTAAGAGGTGCTCAGGGTCCCTGCCTCTCAGAACTGACTCTGCTCCCATATAGCTCAGAATGCTAGGAAGTTGTGACTAAGACATCTAAGATGGGTTCTGAGAATTCAAGGTCATAGGACTCCAGTCTGTGGAGCTGGGCTCTGCTCTGGAGAGGCCCTAAGTGTCCTAGGGTTTGAAGCCCCTCCCTTCCTCACACTTTTCCTCCCTCCTCTTTCCTACAAGGACAAGTCCTGTCTATGAGTTAGGCCCTGAAGGCGGAGGTGAGCAGCACTCCTTCCTCCCCATAGAAGACCTCTGCCTGGCCCCTGGCCTTGAGCTTGACCACACCAGCCATGCGTACACTTGTTTCAGGTCTTAGAGAGAGAATAATAAGTGGGTCAGGGGAAGTTCTTCCACCCAGGAGGGCTGCCGGGGCAGAAGGGCCCACACCAAGCCCCAGCTAGCTCCAGAAGGACCTGTCCTCTGGCAGCCCCCGTCCCCCACTACCTCCTTGCCCACAGGAGAGGCCGCCACCTGGGGGAATTTTGGCTTTCCCCAG
Seq C2 exon
ATGCCCCCACCACCCCCATCAGACAGAAGGCCCGCTTCAAGATCAGAGATGCCAAGTGCCACCTGCGGCCCCGCAGCCAGGAGCGAGCGAAGGATACCCTGAGGCATCCCCTTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010617:ENSRNOT00000017727:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.514 A=NA C2=0.325
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCAGAAACCAGCTACATCCTG
R:
CTAAAAGGGGATGCCTCAGGG
Band lengths:
222-1155
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]