RnoINT0130980 @ rn6
Intron Retention
Gene
ENSRNOG00000001064 | Sbno1
Description
strawberry notch homolog 1 [Source:RGD Symbol;Acc:1310005]
Coordinates
chr12:37607896-37611801:+
Coord C1 exon
chr12:37607896-37608208
Coord A exon
chr12:37608209-37611700
Coord C2 exon
chr12:37611701-37611801
Length
3492 bp
Sequences
Splice sites
5' ss Seq
CTAGTAAGT
5' ss Score
8.78
3' ss Seq
GTCTGCTTTTCTTCCTGCAGCTG
3' ss Score
11.88
Exon sequences
Seq C1 exon
CAGCAGCCTCCATCCACTACAACATTTGTGCTGAATCAAATCAATCAACTTCCAACCTTGGGATCTACAATTGTAATGACTAAAACACCACCTGCAACAACGAATAGGCAAACCATCACTTTGACTAAGTTCATCCAGACCACTGCAAACACACGCCCTTCAGTTTCAGCACCAGCAGTACGGAATGCCATCCCCCCTGCTCCCGCAAAAGACCAAGTTCAGCTAAAGGATTTACTCAAAAATAATAGTTTAAATGAACTCATGAAACTGAAGCCACCTGCCAATATTGCTCAGCCAGTTGCAACTGCGGCTA
Seq A exon
GTAAGTTCATTCTCAGTTACTGGAACTCTGTCTTTCCCAAGTAGGTTTGGTTTTTTGTGTTCTTTACAAGTTTTTTTTTTTTTTTTTTTTTTTCTCTTTTCTATTTTTCGAAGCTGGGGACCGAACCCAGGGCCTTGCGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAACTCCCCAGTCCTACAAGTGGTTTTGGATGTTCTGTTTAATATTTATTTTTTCTTTTTGTGTGCCTGAGTGTATTTATGTGCACCACATGCATGAAGTACCCGTAGAGGCCAGAAAAGGTTGTCAGAGTCCACTGGAACGGGAGCTAGATTCTTTACATTTACTTTCTTTTTCTTTTCTTTTGTTGTTGTTTTTTGAGGATGGTTTCTCCCTGTAGCCCTGGTTGTCCTGGAACTCATTCTGTAGACCAGGTTGGCCCTAGAGCTCTACCTGCCTCTGCCTCCGGAGTGTTGGAATTAAAGGCTTGTACCACAACGGCCTGTCTTAATAGTGGGTGTTAACAGTCTTTGAAACATCTTTTTGTTGCGCACTTAATAAATACCTTATGGTGGGTGTATGGTTCTAGCTCCCTTCTGGACTTTGAGATCCTGTTGGGAAGAAAGTTGTAATCAGTACTCTCTGGGGGCCCATATTGTATGGCAGAGGTGGGTAGTGAATAATTGTATTTATTTCTGGGACAGCCCTGGTGCTGTGAAGAGAAGTAAAAGGTGCGTTGTGGTGTGTTTGGTGCATGTGCATTCCTGCCTTTTGTCTCTTCTGCCCATCAACTCCTTCCCCCAGTCTCCTGGTGGGGAGTGTTTCCCAGGGATCCTCATGTTAAGACCATAACCAGCTTTCTGTTGTTGTTTTTCATTTTTACCTTATTTTTGTTTTTGTTGTTTTGGATTCGTTTTGGGACAGGTTTTCTCTGTATTCCTGTCTGGAACTTGCTCTGTAGATCAGGCTGGCCTCCAACTCAGTGATGTGCTTGCTTCTGCCTCCCAAGTGCTGGGATTAAAGGCTTGTAGCTTTTTTATTTTCAAAGACTTAACTTTATATATATTTATTATATAATTTAATATATTTAATATATATAATTTATATTTATATATATTATACATATATATATTTCATGTATATAAGCTTTCATGTATGGCTGTACCATGCATGCAGTGCTGGTGGAGGCCAGGAGAGGTTATTGGGTCATCCAGGACTGGAGTTATAGATGGTGTAAGCTGTCACTGGGTGTTAGAAATTGGACACAGGTTCTCTGGAAGAGCAACCAGTGTTCCTAACCACTGAGCCATCTCTGTAGTTCAGCACCAGGCTCGCTTTCTTGCTTCCTTCCTCCCTCCCTCCCTCCCTCCCCCCCTTTCTTTTTTTAAATATGAGGTCTGGGAATGAACATGAAATTCTGGTCATTTACAAACTATTCTGCTCTAGGAGCTAGATAGGTTTTTATAAAGCCCTCAAATTTCCTAGTTACTATGGTTAAGATAACATTTTAGGAGTAAATTAGGGGTGGTCTGTCCTTCCCTTTTTTTTTTTTTTTTTGGGTTTTTTTTTTCGGAGCTGGGGACCGAACCCAGGGTCTTGCGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCTGTCCTTCCCTTTTTTAAAAGATTTATTTATTTTATATATATGAGGACACTATAGCTGTCTTCAGACACACAAGAATGGAGATTGGGGATCCCGTTACAGATTGTTGGGAGCCACCATGTGGTTGAACTCAGGACCTCTGGGGTCAGTGCCTTTTTTTTTTTTTTTTTTGGGTCTTTTTTTTCCAGAGTTGGGGACCAAACCCAGGGCCTTGCGCTTCCTAGGCAAGGCTCTGCCACTGAGCCAAATCCCCAACCCCTGGAGTCAGTGCTCTTAACTGCTGAGCCATCTCTCCAGCCCCTCCTTTTTTTATTTCAAACTATAGTATAGATTTTTTTTATTTTGAATTTTATTCTTTTGGAGACAGTCTTGCCCAGGCCACTGTACTCTCAGTGGCCTCCCTACCTCAAATCAAGCACCTGACTACAGGAATTACAGACATGCATATAGCATCTTGCTTGGCTAAGTGTAGTGGCTTTCTTACTTTTTTTTTTAAAGATTTATTCATTTATTATATATAAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCATCGGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGACCCTTACTGTTGTTAGGTGTTGGGTGTATCTGCACCATGTGTGTGGGTTATCCTTGGAAGTTAGAAGCAGTAGCAGATTCCTTGGAACTGAAGTGACAGAAGACTGTGAAGTTGCCCTTGCTCTCTGGTCAGTACCTTACTTTGAGACAGGGTTTCTCACTGAGCCTGTAGCTCACAAACATGGCTGCTTGTTTTGTTCGTAAACCACAAGCATCCTGTTGTTTCCCTGTGCTGAGAGTACGGGTGTTCTGCAACAGCAAGCTCTTCGTACACGTTCTTAGCGTGCAGACTCGGGCCCCTGTGTTTGGGCAGTGAGCACATTGCTGAGGAATCCATAAGCCATCTCCCTGGCTTACTGTGGTGGTGTTGATCGGAAATTTGTAAACAAACAGAAACAACAAAAAGGAATATTGCATGAATTTGTGTGTCCTCTTGCCAAGGGAGCATGCCAGTCATCTTCATATTGTTCCAGCTGTAATGTCTGTGTTTAAGGGAGTCCCTGTATTTTGTTTGAAGTGAAGCAGAGAAGTATCTCAAAAGTAATGCTAGTTTTTGGTATTTGTACTAAATTATTAAGTAGTTCTGACTAACGTATGCTTAATGAATTTTTTCATAATTATAAAATTTCTCATGTACATTTTTTCCCTTTCTTTTTTGAGACGGGATTTCACTATATAGCCCAGGTTGGCTTGGAAATTTCTATGGAACCAGGATAGCCTCAGTCTCACAAATCTGCCTGCCATGGCTTCCTGAGTGCTAGGATTAAAAGCATTTTCCATCCACACAGGCCCATATTCCCCTCTCAGTTACTGGTCTGCCTAAGTGGTCTATAAACTGTATAGCTTTGAGGTTCAGTGACTAGGTAAGTGCACCTGGGCCTGCTTCTCCACACCCGCATCAGGCAGGTCACTGTCACTGTGACTCCACTTCCAAGAGGACCTTATGTCCATTTTTAGCCTCTGCAGGCACTGCACACATATGGTACATGATACATATACTTAGGCACATATACATATAAATATATATAAAATCCTAAGTCAATCTTCAAACTAACCTACAGTAATTTGAGTGCTTTCGTGGTTATGCTTAATTTAGTGGTACATTATTTTGATACTCTTGTTTTTTAAACTGAATTTGTAAACTAGAGGAAAAGAAATGAGATGTGTAAAGTGTAGTCTGCTTTTCTTCCTGCAG
Seq C2 exon
CTGATGTCAGCAATGGCGCAGTTAAAAAGGAGTCTTCTAATAAAGAAGTTGCAAGGGTATGGATAAATGACATGAAGATGAGAAGCTTTTCCCCCACTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001064:ENSRNOT00000057902:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.872 A=NA C2=0.441
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]