RnoINT0131894 @ rn6
Intron Retention
Gene
ENSRNOG00000010617 | Scube1
Description
signal peptide, CUB domain and EGF like domain containing 1 [Source:RGD Symbol;Acc:1309015]
Coordinates
chr7:124515215-124516554:-
Coord C1 exon
chr7:124516438-124516554
Coord A exon
chr7:124515353-124516437
Coord C2 exon
chr7:124515215-124515352
Length
1085 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
GTGTACTCTTCTCTGTTCAGACA
3' ss Score
8.24
Exon sequences
Seq C1 exon
ATGCCCCCACCACCCCCATCAGACAGAAGGCCCGCTTCAAGATCAGAGATGCCAAGTGCCACCTGCGGCCCCGCAGCCAGGAGCGAGCGAAGGATACCCTGAGGCATCCCCTTTTAG
Seq A exon
GTAAGTGGGCTGCCTCTCTTGCTTACCTAGAAAGCGAAGAAGTGCCCAGGCCTTCCGGGTTGGGTTGCCACGCAGAGGCACCCACCTGTCTGTCCTCTACCAGGATTCCTAAGCTCTCTGAGACATGTCTGGCCCACACTGCAATAGTCATGAGTGGGACACATGGGTACTACAGCACCTAACAGGCCACTGTCACACAGACAGACAGACAGACAGACAGACAGACAGACACACACACACACACACACACACACACACACACACACACACACACACATTCTTTATGGCTTGATGGAGCCCTGATGGAAGAGATTTCAGGTCTCAGTCTGGGAGAAAAGCAGCTAACAGCACGGCGAAAGGCCGGAGTGAAGCCTTTATCTCTGGGCTCTGGAGATCCTTCCACAGACTTGCAAAACTCAGCCCTCAGCTGGCTTTACCTGGGGTGTAGGGTCTCCTGGCCAAACCCTCAGCGGGTGCCAAGCAGACACATGGGCTCCTCGCTATTATGAGGTACCTCTATATACAGTGGGATGTCACTCAAGGCTGGACTCAAGACTCACTTCAGCCCTCAGTCCCTTTCGAACCCCATGCAGCTCTGGTCTGGTGTCTGACTTAGGGTTTTATTGCTATAAAGAGACACCATGACCAAGGCAGCTCTTATAAAGGAAAACGTTTAATTGGGGCTGACTTACAGGTTCAGAAGTTTAGTCCATTATCACCATGGCAGGAAGCATGGTGGAGTGCAAGCAGGTGTGTATGGTGCTGGAGAAGGAGCTGAGAGGTCTACAACTTCATCTGCAGGCAGCAGAAGGGAACTGTGTGTCACACTGGGCATAGTTTGTGCATAGGAGACCTCCAAGCCACTTCCACAGTGACACACTTCCTCCAACAAGGCCACACCTCCTAATAGTGTCACTCCCTGTGTAAGGGCTCATGGGGGAGGGCACACTTATTCAGACCACCACAGTGTCTATCTGTCCCATGGCCCGGAAGGACCCTGCCCATGGCAGTTAGCATGTGGGACTAGGAAGGACCCTGCTTCTGACCCAGATCACCTTTGCCACAGTGTACTCTTCTCTGTTCAG
Seq C2 exon
ACAACTGCCACGTGACTTTCGTGACCCTCAAGTGCGACTCCTCCAAGAAGAGGCGTCGAGGCCGCAAGTCCCCCTCCAAGGAGGTGTCCCACATCACGGCAGAGTTTGAGGTAGAGATGAAGGTGGAAGAGGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010617:ENSRNOT00000017727:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.325 A=NA C2=0.383
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:
ACCACCCCCATCAGACAGAAG
R:
TGAGGCCTCTTCCACCTTCAT
Band lengths:
246-1331
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]