RnoINT0131946 @ rn6
Intron Retention
Gene
ENSRNOG00000000500 | Scube3
Description
signal peptide, CUB domain and EGF like domain containing 3 [Source:RGD Symbol;Acc:1304880]
Coordinates
chr20:7728664-7730970:+
Coord C1 exon
chr20:7728664-7728789
Coord A exon
chr20:7728790-7730835
Coord C2 exon
chr20:7730836-7730970
Length
2046 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CCAGTCTCCTGTCTTCACAGACG
3' ss Score
8.94
Exon sequences
Seq C1 exon
ACGTGGATGAGTGTGAACGGGAGGACAACGCTGGCTGTGTGCACGACTGTGTCAACATCCCTGGTAATTACCGGTGTACCTGCTACGACGGGTTCCACCTGGCACACGACGGACACAACTGTCTGG
Seq A exon
GTGAGTGAGGCAGGCTAGGTGGGTGGTGGAAGGAGCTGTTTTCAGTGTGTGTGAAGCAGGAGAGAAGCGGTCAAGAAGAGCTCGAGCTCCAGTCTTTCAAGAGAGCAAGGATGGCCTCCCCTTTGAGACTGGCCAGGGAGGATGAAACAGTCGGGCTAGGGAATATGGGGGTGGGGTGGGGCACTGCTAGAAGTGTGAGTGCACACGAGTGTGTGAGCATGTGTACTCGTGCTGGGTTTAGCATCGTGCATGGGATGACTTAGCTTCAGACAAATCCTGATTCTGCTACCTAGAACCTGTGGGGCCTTGAGCCAGTGAACTAGCCTGTTGGAATCTGACTCCTCATCCCTAAACTGCCTGGGGGCGGGGGTGGGTTTAGGACCCTTCTAAGTCCTAAAGTGTGTGGGCTCGTCAGGAGCACATGTGTTAAAAGCCCCGTGCAGCTTTAGCACAGAGCAGGTGCTGAGGCAGGGGCATTGTTGCTAATGCAGCCGGTGATGCCCTCTGAGCCCTGGACGCCTCTGTCCCTCGACTCCTTTCCTGTCTTCAGTCTCACCCTCTCCAGTTCGGAGCCTCCGTCTGGCCCGCTATCACCTGTCCCGGAGATCTATTTCAGATAGAATTTCTGGGCCGCTGAACTCAGCTGCAGCCAGTCATCTTTGAGAGATACTCAGACCATGTGAGAGTTTCCCCTGCGTAGAAAATCTGAAGCTTCTAACAAGATTTGCGATTTGGAACTGGGGTCCTCTCTCATACATCTTGTAGATGTGTCAGCAAAGGGAAGGGCAGCAGTGACCAGAACAACGTGATTGGTTGGATGTACCATGGCCTAGGAGCCCCCTCTCTGCATGCGGTCGCCATAGCCGTCCCTCCACCCAGGTCCCCAGCAGGCCCTTCCCAGGGGCTGCCTCCCCTCGCCCCTTGGCTACTATGGAAGAACCTTCTCTCCCGTCACCCGAGGAACTATTTAGGGACAGGATCTGAAGTACTGGGTACAGGATGGGGGTGCCCACGGGACCGTGAACATCAGCTCTAGTTCTTTGACCTCCACTGGGTCCTAACTCCAACTATCACCAAGGACTAACCATAGTCAAGAGAAAGCAGGTGCTGAGGGGTCAGAGTTACAAAGGCCTGTTTAAGGTGAGGGTTCATAGCCTCAACCATCCCTTCTAACTCTTAGGGAAAACAAGAAAACTTAAGGGCCTCAGTTTCCTAAAGAAGAAATAGGGGACGGGAGGGGAGTGGCCAGGATAAGGACAGAGTGCAGACACAGAAGTGAGACTCCCAGGGTGACTTATGGGACACCCTATTGTTACCCCTCTCCCATTCAGGGTGAGGCCTGGCCACCTTCCCCACCCTTCCACACCACACTGCCAATAAAACCAAAATAGGAGAAAAACTAGGGAATATGGCGGTGAGCCCAGGCCTGGGGGAAGGGAAGGCTGAGGCTGTGGCCAGTCCACAGAAACGGCCTTTGCCCCACGAGGACCTGTGGCTCGGGGGCCACTCCCTCCATCTTTGGCACCTCAGCCATACCGCTATCTGAGAAAAGAGCCATCTCCAGGTTCCCTGGTTCCTGGCTGCTCATCAGGGCTAGCCTCCATCCCGAGTGCAGCACCACTGCCGCTCCGCAGGACTAGTACCCACACATGTGCATGCACGCGTGTCTGTGCACCACGCATGTGCTTGTGGAGGTCAGGAAAGGACACTGGGTTCCTTGGAACTGGAATTTCAGGCAGTTGGCTGCCATGTGGGCCCTGGGGAGAGAATGCAGGTTGGAGGAGTCAGACCCAGTCTCCTCAGTGTGGGTGAGGAGTCCAGTCCTTACCTTGGCTGGCCAGGTTTGGGTGTTACCTGCCCTACCTTAGCTCTGGACAGAGGTGCATCTTCACACTCATGGGAGTTTTAGCTGACAAGGGACAAGGAGTGCTTGCTAAGGGTGGGCCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACATGTTCTTCAGTGTGCCCTCAGTCTATGCTGCTACCACAGTCCCACCAGTCTCCTGTCTTCACAG
Seq C2 exon
ACGTGGATGAGTGTGCAGAGGGCAATGGGGGCTGCCAGCAGAGCTGTGTCAACATGATGGGCAGCTATGAATGCCACTGCCGAGATGGCTTCTTCCTCAGTGACAACCAGCACACCTGTATCCAGCGGCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000500:ENSRNOT00000000593:3
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:
PF126622=cEGF=PU(83.3=46.5)
A:
NA
C2:
PF126622=cEGF=PD(12.5=6.5),PF146701=FXa_inhibition=WD(100=78.3)
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]