RnoINT0131012 @ rn6
Intron Retention
Gene
ENSRNOG00000013987 | Sbno2
Description
strawberry notch homolog 2 [Source:RGD Symbol;Acc:1307194]
Coordinates
chr7:12490967-12493741:+
Coord C1 exon
chr7:12490967-12491078
Coord A exon
chr7:12491079-12493572
Coord C2 exon
chr7:12493573-12493741
Length
2494 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
AGCCCTGCCTTCCTTTGCAGCTA
3' ss Score
10.72
Exon sequences
Seq C1 exon
ACAGTTCGTGAGCTCCACCCCATTCCTTGGTGGCCAGTCTTGCCCTGAAACCAGCTACCCCACCACAGCCACCGTCCCCAGCTTCTTCTCCAAGAGCAGCGACTTTCCTCAG
Seq A exon
GTAACGGCCACTCTCGAGTATGGGGCCCTGAGCTGTCACTGTGGCCACTGGTCTTCAGTGGGGTTGATTGGGGCAGGGATTTGAGGCTGCTTTGGACAAGAAGGACTGACTGTGGCATCCTGGAGTTGAGGCATGTTACTGGCCTTTGGGGCCGTGTCCAGAGCTGTATGGGGAAGCTGAGGGCTGAGGGTATGTGCCCACTGGAGGCCGTCCTCACTAGATGCCATAGGGCCTCAGCCTGCCTCACACCTGGTTTGAATCCTATTCCCCATGGGACACCAGTGAAGGTCTCTGCTTAGTGGCCAGGCAGGGGCACATATCTCTGTCACTAGAAGTGTAAAGAGGCTCCTCAGACCACTGCAAGGAAACCAAGCCTGCTGGCCCCCATGTCGCTGTCTTGTCTTGTTCTGCCCGTCTTTGTCTGTCTCTGTGTGTTAGGTTTCTAAAGGAGTAGAACTGATTGATGAATGAATGTGTAGCATGTAGTACGTATCACACACACACACACACATATACTCACACACACACTCACACACACGCACACACACACAGATACAGACACACACATTCACACACACACTCACATACACACACACACACACACACACACACACACACACACACACACACACACATATATATACACACACACACATAGATACACGGTAGCCACTCAATAGAGCGCCTTATGTCTGTGCTCTGGGTAGTTCATCAGCGGTTGTCTTTAGTAGCTGCTCAGTCCTTGAAGCTGATGTCCCAGCACTCCCAATCAGTGCTGGAGCCCTGAAGGATTCCCAGGGCATGCTGGTCTCCAGTCTACATTGGAACCCTGAAGAACAGGGCTCTGACACCAGCGAGGGCGCGCCTCGGCAGCAGGGTAGGTGAGCCTGCCAGCGAGCGTGAGGGCAAGCAGGCAAATGCAAAAGCTTCCTCCTTCCATGCCCTCTTATGTGGGCTGCCACCGAAGGTGTGGCCCAGGGTTTAGGGTGGGTCCAGGCAAGAGCCTCCCCCAGGGGTGTGCCCAGCTGCATGGGAGAGTTGATTCCAGCTGCGAAACTGGCACCCAAGATCAGCCATCAGGCTCTGCCTCTCTGTGTGTGTGTCTCCCTGTCTCTGTCTCTCCCTCTGTATTGGTGTCTCCATTTCTCTTCTGATGCCAGAGGCCCACACCTGCCTCCCTGTGGTCAAAACTCCCAGAGGTGATCTCCCTCACCCCCTCCTGCCAGCTGTGCTCACATGATCTGCTTGTTTGAAACCTGTTTATCCCACACATCTGACAGTGTGGTGGCTACCTGTTACCTCTTGCTGGCCGTGGCCACGCCCATCCATTGGGAGAGCGTTTATTGAGCCCTTGGTGTTTTTGTGTCCTACACATGCTGCCCCAGAATGCCTGTGGAAATACCTACCCTCATGCCTGTTGCCCTGACCACAGAAGGTTGGACAGGGGATTCTATTAGAGCCTCTGGCTGTGCTGCCTAAGCTTGTCACCTGCTTCCACCTCCCCAATACTGCCGGACCACGGATGGCCTCAAATTCCACAGAAGAAGGAGCCAGAGCTGAGCCAAGCCTCACGACAGGGCAGAAAGGACATGACCAGTGGTGTAAGTGAGGACCCTGAGCTGGGGACATCTTCCTATGGCCCTCAGAGGGAGGCAGGACAGTAAGAATCAGAGATCCTTCCAGAGGCCATGCTGCATGCCCAAAACTGGGGGAGGGGCTGCGAGTCTACAGGAGATGCTGGGTGTGGTGCCAGCCCCACCTGCTAGGGTGTGGGTCTGCCTTGCCGGTGGCAGGACTCACACTGGCTTCAGGACAGTTTCCCACAGTATGTTCCTGTGGCAAGAAAAGCGGATACCCCAGCCATCATGCTACCTCTGTGCTCCGTGTGGATATGATCGTGACCACGGTGTGAACCAGGAGTCAGAATGGAAAGCCCACCCTGCTTGGACCCAGAGCTAGGAAGGAACATGAGGCCGAGTTTCCTGGCAGAAGCAAAGAGGAAGAGACAAGTCCCGTGGCTGAACTGTACAAGAAGAAAGAAAGCCTGCGGAGGGAGGTCACCCGGCGTTCTCACACTCAGGAAGCCAGGCAGGGGACAGACGAAGAGTTTAAGTGTTCCTGGGCTACACCTGGAGAACCTGTCTCAAAGCAACAAGAAAAGTGTAACAGAAAGAGAAGTAGAAGAAACCAAATATTACCTGCCATTCAGTCCCTTCCCTGTGGGTAGGGCCCCCTGTGCGATGGCATGTTGGAAGTCGCCTCTGCTGTCTGCCATCTTCCACTCAGGCTCCTGTTCTCGTGGCCTCTTCTGTGAGCTGTGGGAGTTCCTCCCCCAACATACATTTCCCACGATGCTGCATGACTTTGACACTTGGGGCCCCAGTAGCTGCTGACTGGACCCGGCAGGGCACACACTGGTGACACACTGGTGACATCAGGCTTCCACAGTGTCTTGAGCGCCTGACAGTGCCTGGAGCCCTGCCTTCCTTTGCAG
Seq C2 exon
CTAGCCCCAGCCCTCGACCTCCTGCTTCTCCGAGGACAGGGCCCGTGCACTCCTGGTCTGCCCTCCATCTCTGGTGGCATGGAACCCCTTCCCATGGGCTCTGATGGCCCTGCTTGGTGACCAGAACAGCTTCACAGTCCCCTGTGGGATACCCACCCTGGGCGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013987:ENSRNOT00000068197:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.149 A=NA C2=0.265
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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]