RnoINT0131895 @ rn6
Intron Retention
Gene
ENSRNOG00000010617 | Scube1
Description
signal peptide, CUB domain and EGF like domain containing 1 [Source:RGD Symbol;Acc:1309015]
Coordinates
chr7:124513038-124515352:-
Coord C1 exon
chr7:124515215-124515352
Coord A exon
chr7:124513242-124515214
Coord C2 exon
chr7:124513038-124513241
Length
1973 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GGGTCCCTTCACCCCTGCAGGCT
3' ss Score
7.3
Exon sequences
Seq C1 exon
ACAACTGCCACGTGACTTTCGTGACCCTCAAGTGCGACTCCTCCAAGAAGAGGCGTCGAGGCCGCAAGTCCCCCTCCAAGGAGGTGTCCCACATCACGGCAGAGTTTGAGGTAGAGATGAAGGTGGAAGAGGCCTCAG
Seq A exon
GTGAGTGAAGTCTTCTCAGAGACTGCGAGTCCAGTAGACATAAGGCTCAGTGAGCCATAGGGAAGTCAGGGCTTTGGGGAAGCGATGCACACTGCGGGTCAAGCTCTGTAGCCCTGAGTGCAGAAGGCAGTGCAAGGTAAACACTTGGAGTACAGCTAAGGGGCAGAGACAGCAAAGTACCCCAACTCTATGTGCCTGCTAGGGCAGGAAGGTCAGGGGTAGTAGCCAAACCAGGCCCTCTTCCCAGCCAGCAAGAAGAACTTGTGATATGGAGCCCTCATACAGGCAAGCCTTCTTAGCTCTAGGTGAGTGGTTGGTAATAGGTGGTTTGTTTACTACTGTTATTTTTATTATTGTTGTTGTTGTTGTTGTTGTAGGTGATGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTAGTAGTAGTAGTAGTCGTCGTCGTCCTTTTGAGACAGGTTCTATTATGTAGCCCTAGCTGTACTGGAACTCTCTATGTAGACCAGGCTAGACTCAAACTCACAGAGATCCTCCTGCCTAAGCCTCCAGAGTGCTGGGATGAGAGGTATGTGTCACCATGCCTAGCTTGGGTTGTTTGCTCTTAAGACAGGGTCTTATGTAGCTCAGGCAATCCTCAAAGCCAATATGCAGCTGAGAATAATCTTCAACTCCTAATCCTCCTCCCTCCACTTCTTGAATGCTGGGGTACACACCCACCCTACCTGGCTCTAGTGGTAGGCAGTGACAGAACTGATTGCTTTTGGCAGCTGTGCCGTGGCAGGATGTGCCTTGTCTGGGCCATGGGCATTGTGGCCATGGCTGCTGCCCTAGAAGCACTCTCATCTATGGGGAGGCAGATGTGGGCATGCCAGCGATGCTGGGCGAGACTAGGTGGCAGGGCTTGGAGAATACATAGGGAAGGAAAGGTGTTGGAAGCCTTCTAAACTAGAGACTGAAATCTAAAGTTATCTGGTAGAAGTGGCGAGGAATGGGGTCCAGGGAGAGGAACAGAGCAGGTAAAGGCAGAGGGGTCAGAGAGAACAAGACGCTGTCACCCAGGGATCGGCAAGGAAGAAGAGCAGAGACGAGCAGAAAGCAGAGAGAGACAGAGAGGGACTAAGCCCCTCGAGGATCTGCCTCCGTTGCCTATTTCCTCTAGCTAAGCCCCACCACTGAAGGTTTCAGAACCTCTCCAAACAGCACTGCTTAGCTAGGGACCATGCCTTCAAACTTTTATGGCAAAGAGGAGGTCAGGAGTGCCGGTGCACATCGGGGGAACAAGCCTGTGAAGGCCAACAACCAATATGTCACTTTTTTTTTTTGAGACACATCTCACTAGTTAGCCCTGGCTGGCCTGGAACTTGCAATGTAGAACAGGCTGGCCTCAAAACTCACAGAGATCCTTTTTCCTTAGTGCCATGATTAAAGGCAAGTAGCCACGCCTGACCCTTATTTTTAGAGATGGGATCTCTCCCTGAACATTGAACTCTTTTGACTCTAGAGATTGGCTGGCCACGAGCTCTGAAGATTCACCTGTCTACCTACTCCAGTGCTGGGGTTACACATCCACCTGGTTTTTTATGTGGGTACTTAGGATCTGGGGGATCAGAACTCAGCTCTTCATGACTGCATGACAAACCTTTAACCAACTAAGCCATCTGTCCAACCCTGGGGGACACTATATCTACTCATATCAAAGCCGGACACTACCCTGGAGACAGTGGCAGAAATCAAGAATGGGCACTTTGCTCAAACTCAGATCTACTCTGTGACCTCTTAGACCCTCAACTTTTTATTTCTGTCTGACACCTCTAGTGCCCCCCATCATACCCCAACCGGGGTCTACTGTGGATGTACTGACATGGTTTAGGCAGAAGCTTAGCACAGGGCCTTGCTGGGGGAGTCCCCAGCAGAGAAGGCAGCCATTAGCTACTCTCTCTCACTGGGTCCCTTCACCCCTGCAG
Seq C2 exon
GCTCCTGCGAAGCAGACTGCATGCGGAAGCGTGCCGAGCAGAGCCTGCAGGCTGCCATCAAGACTCTGCGGAAGTCCATCGGCCGGCACCAGTTCTACGTCCAGGTCTCCGGCACTGAGTACGAGGTGGCCCAGCGGCCAGCCAAGGCACCGGAGGGGACCGGGACATGTGGCATAGGCCAAATACTACAGGATGGCAAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010617:ENSRNOT00000017727:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.383 A=NA C2=0.058
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:
ACAACTGCCACGTGACTTTCG
R:
CACACTTGCCATCCTGTAGTA
Band lengths:
342-2315
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]