RnoINT0131896 @ rn6
Intron Retention
Gene
ENSRNOG00000010617 | Scube1
Description
signal peptide, CUB domain and EGF like domain containing 1 [Source:RGD Symbol;Acc:1309015]
Coordinates
chr7:124510296-124513241:-
Coord C1 exon
chr7:124513038-124513241
Coord A exon
chr7:124510458-124513037
Coord C2 exon
chr7:124510296-124510457
Length
2580 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TCTCTGCTCTGCCTCTGCAGTAC
3' ss Score
9.04
Exon sequences
Seq C1 exon
GCTCCTGCGAAGCAGACTGCATGCGGAAGCGTGCCGAGCAGAGCCTGCAGGCTGCCATCAAGACTCTGCGGAAGTCCATCGGCCGGCACCAGTTCTACGTCCAGGTCTCCGGCACTGAGTACGAGGTGGCCCAGCGGCCAGCCAAGGCACCGGAGGGGACCGGGACATGTGGCATAGGCCAAATACTACAGGATGGCAAGTGTG
Seq A exon
GTGAGTCCCTACTCGTGGGCCAGCACTAGTAGCCCAGTGAACAGCAGTGACCTCAGGGAAGTCAGATGCAGGGCACATGGCGGGAACAGAGGGACCGGCCTGCGGAGGAAGAGAGCATTTGTTCTTACCACCATCAGTTAGAGCACACTCCTTCTCTTCTGAGAAGAGGGAACAGACCCAGGGCAGTGCAGCGAAGTCACAGGAGTGAGGCACGAGTCCCCTGGGGACCAGACTGGGCTCTAGTCTGCAGTGTGGTTCAAAAGGAGGTGGTGTGAGCTGAGCCCTCAGACTGAGGAACTGGGAGGTAGAGGCCTATAGTGCTTCCTAACCTCCCCCCATTCCCTCCCCCAGCCCCAGAGTACCATCCAAGAAATCTGTTGTAAAATTACAAAAAATATTACCTAGGAAGCACAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAATACAAAAAATACAAAAAATAAAAGGCTGTCTTTAATCCCCCACTAGGTCTACACCGCAGTGCCCCATGATATCTGGTAGATATCTTGCCAGAGCACACATCCCAATTCCGAGGCGGACCAACGCCTCTAGCAGCCACAAACTCTCTTACACTTAAATCGCTGCATGAAAGAACATAACAACATAATAACCTTTGGTCCAATTGATAAGATATAATTGCCCACCTAAACATGCAAAGCCTTGTACACATCCATCCCTTAAGAACATTCATAACAACCTGTAAAGGTACAGAGTGGAATCCTCCATTGTTGTCCCCACCACGGCTACTCTCTCATCTCCTCCTCTCTTCCGTTCCTGTCTCCTCCTCTTCCTTCAAACTTTTCTCCCACCCATCCTTCCTTCTCATCCAATGACAGGCCTCCTTCTATCCTGTACCTGCCCTCACCTGTATTTTACAAATTAAATGGGGAGAAGGTTCTGGTGAAGTCACTTAAGTCCTGAGTAAGTGACTAGGCAGCTGTCCTTGGGTCAGTGGAATTAGCATCAAAATACAGATAACTCCAGGGCAAACCACAAGAGACCAGGACCAGCAAGCTATAGGAGAAAGACCAGAGGCAGTAACTATAGGCAGACCCAGGCAGTATCACTTGGGAATGCCCTGTTAGAGAGAGCAGATTCACTGACAGCATAAGGCTTGGGTGGTGGCTCTCCAGGCAGAGTCCTAGTCCTCGTGAGGATGAGGGGCAGTGAGCAGGCCAGTGCACACACGGGCGAGATGATATGGCCACAGATGCAGCTCTGAGTCCCTCGTGCCCTAGGTGAGTGAGCCTCGGTGTGTCAGAGCCTCTGTGTTAGCGAGACTGTCTCCTTGAGGCTGTGTGCAGGGAGTTGACCACGGAAGAAAGGCTGACTGCAGCCTGGAAGCAGGTACCTCACCATCAGGAGAGTGACTAGGGAAAGACTTCAGGGGTACTCCGAGGGTGTGTCCAGGAAGTCGAGGGAGAGGGGCTGAGGGACATGCAGATGCTTATCCTGCTCCTAGGAAAGTGTTGGACAGGCCTGAAGAAACATCGTCAGGAACTCCGTACAAAGGGCATGTGCATGTGCACGAGTTCCATGTGGGACAGTGAGGGGCTTGGTGATGTCATTCTCTTACCTTTAACAACTTATCTGGGAGTCATTTCCAGTTTTCAGAAACCTAGTCAAAAAAACAAAAAAAATTGAGTAATTCCAGCTATGGACACTGTGTCATATCTGCTCTCTGTGTACACACATGTGTGCACTCCCCCCCCCCGTCCATTTCTGTGTCTATCTCTGTGTTTCTGTCTGCCTGCCTGTCTGTCTGTGTGTCTGTCTGTCTGATTCTGTGTGTCTGAGGTGAATATGCAGTCCATATCCACCCACGTGTCCACTTGGGAACCTCAGGGATCTTCCTCAGCCTCCTTCACACATCTGCACCCGCCTCCTGCAGTGACAAACATGGCTCCCCTTTCCCTTACAGCTTCTTTTTTTTTTTTTTTTCTTTTTTCTTTTTTTCGGAGCTGGGGACCGAAGCCAGGGCCTTGCGCTTGGTAGGCAAACGCTCTACCACTGAGCTAAATCCCCAACCCCCCCTTACAGCTTCTTATGGGCATCTTCTGTGGCTCTCAGCAGCCCATGGCCCTGGCTCTCTGGAGCCCTTCATCTCTGTGTTACTCCACAGTAGTCTGTCTGCCTCAGCTGTCCTCACCCACGCCTTCTACTGGTCCCCAGGCTGTGTTCTTAGGTGCCAGCTTCTCCAAACAGGCAGGAAAGGAAAAAGAGGTTTGGGGTGGGAAGTCCTGGTAGAGATATATAGGGGACAGGGATATTGGATAAAACCAAAAAGTCAGGCTGAGAGCAGGGTGTAGGTCAGAGGCACGGAAGTCCAGATGGAGCCCAGAGCACAGCTGTGGGGAAGGGCTGTGCAGAACACTCTAGAAAGAGCATCAGGATGTAGCCCATAAGATCCTCATAGATGCCTGCCACCTGGGTGCTCTCCACTCTTCTGGATAGATGCTTAGAGCCTGGGGAACTAGGGCTGTGTCCTGTCTGCACACGGGGATGGCCCCTGACCCACGTCTCTCTGCTCTGCCTCTGCAG
Seq C2 exon
TACCATGTGCTCCTGGCACCTACTTCAGTAGTGAGCCAGGCCAATGCGTGCCGTGTGTGTCGGGAACCTACCAGGACATGGAAGGCCAGCTCAGCTGCACGCCGTGCCCCAGCAGCGAAGGGCTGGGTCTGGCTGGTGCCCGCAACGTATCCGAATGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010617:ENSRNOT00000017727:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.058 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=87.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]