RnoINT0131897 @ rn6
Intron Retention
Gene
ENSRNOG00000010617 | Scube1
Description
signal peptide, CUB domain and EGF like domain containing 1 [Source:RGD Symbol;Acc:1309015]
Coordinates
chr7:124508823-124510457:-
Coord C1 exon
chr7:124510296-124510457
Coord A exon
chr7:124508991-124510295
Coord C2 exon
chr7:124508823-124508990
Length
1305 bp
Sequences
Splice sites
5' ss Seq
GAGGCGAGT
5' ss Score
2.28
3' ss Seq
CCGTAACTTCTGACTTCCAGGCC
3' ss Score
6.74
Exon sequences
Seq C1 exon
TACCATGTGCTCCTGGCACCTACTTCAGTAGTGAGCCAGGCCAATGCGTGCCGTGTGTGTCGGGAACCTACCAGGACATGGAAGGCCAGCTCAGCTGCACGCCGTGCCCCAGCAGCGAAGGGCTGGGTCTGGCTGGTGCCCGCAACGTATCCGAATGTGGAG
Seq A exon
GCGAGTGTGACCCACCTGGAGGGGAGAGGGTTGGGTGGGGACACATTCCAGACAGGGCCCATCAGCCCCTTATAAGGCTCCCTGAGCAAAAGCAAATGCCATAAGCTGTGACCTTGTCTGAAGTTCTACCCCTTCCAAAGACACAGTTTCCACAGAGTCGCCATGCACAAGACCTTACAGCAGCACGTACATACAATCATTGACAGACCAAGGTGTGGCTCGTAACAGAAAAGACGAAGGCTTAAATGACACTCCACGTTCTGTGAGATGCTTCGCCCCAGTCAGGAGATCGGCTTCAGCCAGAGCTCTCTCTACATAAACAAGTAGCATGTTGTTTGCCCTGTTGGTGGTTGAGAGGCCAGTTGTCAGTTTACCAGGGGCACTCAGCCCCTTCTGCAACATGGATCAGAGTTCCCCACTGGACTCTCCCGCTGGGCCATACTGGGCCACTCTAGAGAACAAACACCAAGGGCTCAACTCTGGAGAGGGGTAGTGTCCAGAAGGGTGGGCGAGGAGCAAGACCTCCAAGGCACAAGAGAGCCCACCCAGAGTCTAACCACAGAGGCCCTGTGGTTGCCACTACTCCCTGATCTTCTGGCTCCCAGGAATGTGATGCCTAGGGAAGTGGTGGCCGTGAAAGCACACGGTAGCCATGGGATGGGAAAGTCTCCACTTGGATGGAAGCTAAGAATCTCAGAGACTGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCGATCCCCAGCTCTGAAAAAAAAGACCCAAAAAAAAAAAAAAAAAGAATCTCAGAGACTGGGCCAAGAGGACATTAAACCCACTCCATATTGGAACATCTGCACCCACATTTCTGTGGAAGTGCTGAGCTCAGGGTGGCTTTTTTGTGATCCCTCTTTGTCTCTGCCAGGCCTCAAAGACCCTCCCCTCCCCCTCCCCCTTTTCTGACCTGTCCAGCTGACAGATCAGACAGCATCAGCCTAGGGCTCTAGGCTATTCCTTCTGTGAGCACCTGAGACCTGCCCCTGGGAAGCTGGGGTGTGAACACCCCCTCCTCTGCACCCCAGACCTTGCTCCTTACTTGGCCTCAGCCAATGCTGCTGCTGAGAGATGGGAGGGCAGGCTGGCAAAGCCATACAGTAAGCAACCGTCAGCCTCAAGACCCAGGGCCTACAATCTCCAAGTTGCCCCGGGGTACCTTTTCCGGGGAGGGTGGGGCCAAGCCCTCATATCTGAGTAGCTGCAGCACATCTCCCAACCTGAACCGTAACTTCTGACTTCCAG
Seq C2 exon
GCCAGTGTTCTCCAGGCTTCTTCTCAGAGGATGGGTTCAAGCCTTGTCAGGCCTGCCCTGTGGGCACATACCAGCCTGAGCCTGGGCGTACCGGCTGCTTCCCCTGTGGAGGTGGGCTGCTCACCAAGCAGACGGGTACTGCCTCTTTCCAGGAATGTGAGGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010617:ENSRNOT00000017727:17
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:
PF076998=GCC2_GCC3=WD(100=87.3)
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=84.2)
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:
GCTCCTGGCACCTACTTCAGT
R:
TGGCCTCACATTCCTGGAAAG
Band lengths:
319-1624
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]