RnoINT0131945 @ rn6
Intron Retention
Gene
ENSRNOG00000000500 | Scube3
Description
signal peptide, CUB domain and EGF like domain containing 3 [Source:RGD Symbol;Acc:1304880]
Coordinates
chr20:7743110-7746331:+
Coord C1 exon
chr20:7743110-7743189
Coord A exon
chr20:7743190-7746181
Coord C2 exon
chr20:7746182-7746331
Length
2992 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGT
5' ss Score
3.24
3' ss Seq
CCACCTGCCATCTTCTGCAGGAT
3' ss Score
10.49
Exon sequences
Seq C1 exon
AGGACTATGAGCAGCTGGTGGAAGATATAGTGCGGGATGGCCGGCTGTACGCCTCTGAGAACCACCAGGAGATCCTAAAG
Seq A exon
GCAAGTGATATCACTGCGGTGCTGGCGTAAACGGGCGAGCACCAGTGTGCAGGCAAAGCACTAAGTATAGCATGCCTTGCCCCTGGCTCTGTGAGGTATGCACTTTCTTCATCCCCAGCTCACAGAGCCAGTGTCAGCATGCTGCATCACCCTGAGGGGAGGGCAGGAGATGCCCGTCCATCGAGAGACGCAGAGAAGGTAAACTGCACAATGATGTGTTGTTTACTTCTTGGAGACAGAGTCTTTTTTTTTTTTTTTTTCTTTTTTTTTTCGGGGCTGGGGACCGAACCCAGGGCCTTGCGCTCGATAGACAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCTTGGAGACGGAGTCTTAAGAGTCCAGGCTGGCCTTGAACTCCAGGTTCCTCTGCTTCCAGCTAAGTGCCAGGTGGGATCACGGGCCCAGAGGAAAAGAAATATTTCTAACGTGGAGGAACAAACACTACCGTGGGTCTGTGGGTCTCACCTGCCGTGGTGTTACTTACCTTTGATCCCAGCACTCAGGAGGCATAGGTGGATGGGTCTCCAAGTGTAAGGCCAGCCTGGTCTACCTGTGGAGTTCTAGGACAGCCAGGGCTGCACACTAAGACCCTTCAACTGTTATTTTTTACTTTGCTATTTTTAATGATAGCTATTTGTATGACTGTGTATATGTGAGCACAGAGGGGTCAGAGGGGTCAGGTCCCCCTGGGGATGGCGTTGAACCCATGTGAGCCACCTAGTATGGCTGCTGGGAACTAAACCCACATCTTTGCAAGGACAGTATATGCTCTTAACCTCTGAGCTGGCTCTCCAGCCCCAAGCCATTATTTCAAACCAAGTGTCGCTGGGTGTGAAGGTGCACACATGTGGCCCCGACTATTCAGGAGCTGAAGCAGAAGGATCACTTGAGCCCAAGGATTAAGAAAACAGCCTGAGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGTGCAAGGCCCTGGGTTCAGTCCCCAGCTCCAAAAAAAAAAAAAAAGAAAAGAAAAGAAAAGAAAACAGCCTGGGCAACACGCTGGACTCCATCTCAAACAGCAAGTCAAATGCCCTGTGCAACTGTATTTCACAAAGCGGTGCGAACACACTGGAGCTGGGGCTACACACCCTTGATCGCAGTACTCAGGAGGCAGAGACAGGAGGATCTCTGAGAGTTCTAGGTCCAGCCCTGGCCACACAGTGGGACTCTGTCTCAAAACAAGGACAATATAGTACAATCGTCTTAGTTAGAGTGGAGTTAAGAGGCCGGAAGCCCCAACTATCTTGGAAGTCTTAGTGTGCAACCTAGAAACCAGGACTGTATTGCTGGGTCTCTGAGGGCATGGGGTTGTGTGTACGTGTGTGTATGTAGAGGTCAGGGGACAACTTGGAGGGGTTGGTTCTTTCCTCCCATGCCATGGGTCTTGGGAATCAAACTGAGGTTGTCAGGCGTGGTGGTCGGGGCCTTTCCTGATACGTCATCTCGCCAGCCTAGAGAGGAGTTTTAAGGGGCAGTGCCTGGCACTATAGAGAGGCGGGCTGGAGACCTATGAAGGCAAGCTCTGAAAGGACCTGTCGGATGGCCAAGAAGTGGTCCAGGCCAGTGAGTACAGCAGTAGTGCAGTGTATTTAAGGTCCCCAAGACTGCCATCCTTCCACAAGGTGAGGAAGAGAAGAGGGAAGCAGGACACAAATGACACATAGCTAGCGTGCACACTAGGGACCTGGCTTTTACTGTGAGTGAGGAAAGAAATCAGGCCTGGAGTGTAATCCATGGCAGAGAAACGTTTGTCAGACACAAGGCCCTGGTGTGGCTCCTGGGGCTGACTACTGTCCTCGCTATAAAGAGAATAAACTTATTGCAGACACAATAGCACCTGCCTGTGGGCTCGGCTCCTGAGGCAGCTCAAACACAAGGGTCACTGGAACCCAGAGGTTTAAGATTACCCCACCCAAGACAACAGCATCTCATCTCAGCAAATGGAAAGCAGAGAACAGAACATGTGTTTCAAACATAAAGTAGACTAATTAAACACCCCACTGTGGGTGTTGTGAGGAGAAAAATCTACAGTGGACCAAGGATAGAAACAAGGGCATCAAACCCAGGCCCAGTGGCTCACGCCTCTAATCCTCGTTATTCTTAAGGCTGAGGCAGGAGGATGGCATGTTGTAGGTCATTTGGAGCTACTAAGCAAGTTCAAGGCCACTTTGAGCAACTGAGTGAGACACTATCTCAAGTAACGAAAGTTCTGGGGACAGAGCTCACTACTAGACTTGCTATTACAGAGTGACGGACTAGAAGAGAACTCTATTACAGCAATACTAGAATTGCTAACAGCAGAACTGCCCAGGGCTGGAGAGCCGGCTCAGCAGTTAACAACATTTGTCACTTCTTGCAGAGGCACACAGTGGTTCATAGCCATCCATAACTCCAGTTCCTGGGACTCTGACACGCTTCTGACCTCCTCAAGCACCAGGCATGCATGGGGTGCACACACACAGGTGACATACACATAAACTAAGTAAATCTAGGAGAAGAAAGAACACTAGCCTAGTGTGTATGAGGGCCTCAGCCCCACCCTTAGCATCACATAAAACAAAGGAAAGGAACAGACCCACCATTGGAACAGCCCAGGCAAGAGATTACGGTGGCTTCCCTCCGTGTGACAGCTGTGGGGATGGCAAGCTGGTCAGATGCTGGGCATACACTGAAGGGAGAGTCAACAGTTGGCTGTAGCTCTGAGGAAATGGTCAGGGCCGGGCCTTAGCAGTGGAGGACTAGGCCTGTGTCACTACCTGGGCTGCAGGGTTCTGGGGCGCCGGCAGTAGGGACAGGAGGCCAGGGCTCACCTCTGGGCATGCTCGGTGGGAGCCGCTGTTGGACAGGAGGAGGTCTGCTGAGTATTTCCCTTTTCCACATGCCACCCAAGCTGACAACTGCCACCTGCCATCTTCTGCAG
Seq C2 exon
GATAAGAAGCTTATCAAGGCCTTCTTTGAGGTCCTGGCCCACCCCCAAAACTACTTCAAGTACACAGAGAAACACAAGGAGATGCTGCCAAAGTCCTTCATCAAGTTACTGCGCTCCAAGGTCTCCAGCTTCCTGAGGCCTTACAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000500:ENSRNOT00000000593:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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:
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]