RnoINT0131899 @ rn6
Intron Retention
Gene
ENSRNOG00000010617 | Scube1
Description
signal peptide, CUB domain and EGF like domain containing 1 [Source:RGD Symbol;Acc:1309015]
Coordinates
chr7:124505921-124507953:-
Coord C1 exon
chr7:124507792-124507953
Coord A exon
chr7:124506119-124507791
Coord C2 exon
chr7:124505921-124506118
Length
1673 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
CTTGGCCATGGTACTCACAGACC
3' ss Score
5.34
Exon sequences
Seq C1 exon
TACACTGCTCTCCCGGCCACCACTACAATACCACTACCCACCGGTGCATCCGATGTCCTGTGGGTACCTATCAACCCGAGTTTGGCCAGAACCATTGCATCTCCTGTCCGGGCAACACCAGCACCGATTTTGATGGTTCCACCAATGTCACACACTGCAAAA
Seq A exon
GTAAGTGTCCCTCCAACCAGGAGGGAAGCTGGGAATGCGGGGCAATGGGGGAGGGGGCAAGTGAGACCTGACCCCACATTCTGAGTGGAGACTACTGGCCCCTGGCAAGGTGGGGCAGCCAATGCTCTGCCCACTGTACAATAAATGAGATTACACTACAGTTCATAATTCCCCATGAATGCTTGACGAGACCTGAGCCTCAACCCAGACCAGACCCTGCTCTGGTTTCTGGGTACCCAGAGAAAGAAAGCAGGTTCTGGGCCTGCAGGGGGCAGGCTATGAGGCAGCTTCCAACTGCCTGCCTTCAGCTATAGAAGCCACCCACTACCTAAACCATCACCTGGCACCACATAAATGCCAGAAAGCAAGGGAAAACATGGAACTGTGTGGAAGGGCTGGAGGAGGACCTGAAAGGCCTTGTGGGATATCAGCTTGGCCTTTCCTACCAGCTCCCAGCTCTTGGCACAGCAGTCCTGGGGTATAAGAGGATACTAAATTAGGGCTTTTACTCGACTTCTGAGAGTTTCTTCTGCTACTGTTTATTTTTTCTTTTGGGAGTCTCTCTATGCAGGATCTTTCTATGTAGTTCTCGGCTGGCCGAGAACTAGCTATGTAAACCAGGCTGCCCTTGAACTCACAAGAATCCCCCGTCTCTGCCCCCAGAGAGCTGAGACTAAAGGTGTGTGCCAGCATTCTGGGCTGTTTCTCAGAGTTTCTAGTTTTCACACTTCCACCCAAAAGTTCACAGCTCCTTCCTGACTGCTGGTCATATCTAGAGCCACCTAGAAGCCTTAAAAGGTTGATGGTTTGGTCAACCCTTTGTCCAGGGCTGTCCCTAACCCTGCCATGTTACCCCCTGAAGCATCTGTCAAACAAAGATGAGGCACTTTCAGCCATGTCATTTTAGAGATTAATTAAATATTATATTTAACTGAAAAAAATAATATTTTAATGAGTAAAGTTGGAGAAGCCAGATGTGAGAGAAGATTCTAGAATACTGGAGAGGCAGAACTGTTCCTCAGAAACTTACTTATTTTAGAGATAGTCTCACTGTGTAGACCAGGCTGACCTAGAACTCACAGAGAGCCGCATGACTCTGCCTCCTGAGTGCTTGGTTTAAAGGCGTGCCCCACCATACCTAGGTCTCAGAAACTTGGAAGTAAAAACGCACAGGAAATTTACCAATATTTACTACTACTTACATTCAGTTCCCTTTGAAGAGCTAAAACTGTAAGCTTAAAACTAGGAACCAGCCAGGCAGTGGTGGCACACACCTTTAGTCTTAGCACTTGGGAGGCAGAGGCAGGAACCCTATGAGTTCAAGACCAGCTTGGTCTACAGAGAGAGCTCTAGGACAGCCAAGGGTACACAGAGAGTCCAAAAAGCTGAAAACAACAAAGAAACTAGGCACCATCTGGCTCATAAAACATGGAGAAAATAAAGAAGGAAGCTGGGCAAGCAACCGGGTGTCAGGGAACCTGGTGGTGTCAGCTGAGGACCTGCCCTCTGGTTGCACAATAGCAGTCCAGGCAGGGCCTGCTGTGAGTTATCAGGAGACCTCAGTAGCTGGCACAGGAGTACTTGCCAGCCCTGCCCCGCACCTCTAATGCCTTTGAGGGCTAGAACACCCATGCAGGCAGCCTGACAAAGTCCCTTGGCCATGGTACTCACAG
Seq C2 exon
ACCAGCACTGCGGTGGCGAGCTTGGTGACTACACAGGCTATATCGAGTCCCCCAACTACCCTGGAGACTACCCAGCCAATGCGGAGTGTGTGTGGCACATTGCGCCTCCCCCCAAGCGCAGGATCCTCATTGTGGTCCCTGAGATCTTCCTGCCCATCGAGGATGAGTGTGGCGATGTTCTGGTCATGAGGAAGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010617:ENSRNOT00000017727:19
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:
PF0043115=CUB=PU(57.3=94.0)
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:
CTCCCGGCCACCACTACAATA
R:
CCTCATGACCAGAACATCGCC
Band lengths:
344-2017
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]