RnoINT0130962 @ rn6
Intron Retention
Gene
ENSRNOG00000001064 | Sbno1
Description
strawberry notch homolog 1 [Source:RGD Symbol;Acc:1310005]
Coordinates
chr12:37622982-37625215:+
Coord C1 exon
chr12:37622982-37623079
Coord A exon
chr12:37623080-37625063
Coord C2 exon
chr12:37625064-37625215
Length
1984 bp
Sequences
Splice sites
5' ss Seq
CAAGTAATG
5' ss Score
2.09
3' ss Seq
TCACTGCTTTTTTCCTACAGAGG
3' ss Score
10.09
Exon sequences
Seq C1 exon
TGTGTTGTAATTGGTCTGCAGTCCACAGGAGAAGCCAGAACTTTAGAGGCCTTGGAAGAGGGTGGAGGAGAACTAAATGATTTTGTTTCAACTGCCAA
Seq A exon
GTAATGTCTTTAAATTTCTTTTTGAATATTAAATTAGATGAACCTTTAGCATTTCCTTTAAAAGTTGTCCTTCTCTGAGTTTTCAGGGTTCTGTGTTTTCCTTCTTTATAATAAATCTTCCGAGAATAATAGATAACTCATGATCCTGAGGTGCCGAGCATTTTGGTGACGTTACCTGGAGTGTTTAGACTTAACGGAGCTGGATTTTGTTTTCTGAATTTTAAAGCTGTCTTAACATCAGATTTAGTGTTATGTGTTTGAAATAACCCTTGCTTTTTTGAGTGACACTTAGTTTGATGTATAAAATCTGCTCTAAACATTCAATATTGGGGAATGGAAAGATGTGTTTAACCCATATTGCTCTCCTATTGGACCTGACTTTAATTCCCAACACCTATGTATAACTCTTAGCCCCAGGGTATCTCAGTATCCTCTTTTTATCTCTGAGAGCACCTGCACAACATATACCTTCTATCCATATACAGATATACATATAATTTCTTTTTAAAATAAAAATTTTCAAAGATGAAAAGTGGAAATTGAAATTGCAACTTTAGAAACCTTTAACGATGATAATTGGAGATCAGACATAGTGGCACCTACCTGCCTTTGTTCCTAGCACTGGGGAGTCAGAGGCAGCAGGTCTCTGAGAGTCCAAGGCCATTCTAGGCCAGTGAGTCACTGTCTTCAAATCCTGAGGGAACAATACAGTTAATTGAGGGGACTCGGAGATGGCTCTGAGTTCTCAGTGTCTGCTCTTACAGTGGACCTCCCACCCACATGGTTGCTTCCAACTACAACTCCAGTTCCAAGGGCTCTGACTGCGTCTTCTGGCTTTCAAGGGCACTGGGCATGCATGTGGTTAATAAACATACATGTAGGCAAAAACCATACACATAAAATGAATTTAAACTTTTTTAAGTCTTAGAAAATCTTAAGCGATAATAAGTCAGCATGATAACTGAGGCTGTCCTGTACCCCTTTTGGGGACCCGTCCAAGAGCTTTGAGAATTCCTGTCACTGAAAACTGCTGGTGAAATGTCTTTCTGTTTTGAATCATTGAGAAACTTCTGCTATTCACATGTGAAGCTACTTGAGCAGTGTATAAGGCCTTCATGGTGTTAGTGTGAAGCACACTGTTTGAGAACATCTTCAAATGTAAATGTAAGGTGTGTTGTAATTGTAAGACATCTTATTGATTATATATTAAAGACTGGTAATTGAGGTAAGTAAATGTACTATTATTGAAATTAGTTTCAGTAACCTCCTTGTCCAGTTTGTTATATTTCCTATGCCAGTCCTGAATCTCTGGGCTTAAGACACCTCCTGCTTAAGTCTCCTTCAATAGTTGTGACTACAGGCAAACACTGTTATGCCCCCCTTTTTAAACCTTTTACTCTTGGGCTGGGGAGATGACTCAGTAGTTAAGAGCACTGATTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCACCCACATGGTGGCTCACAACCATCTATAATGAGATATGATGCCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACTTATATATAATAAATAAATAAAATCTTAAAAAACAAAAAAACAAAAAAACAGCATGGCTGCACGTGACAGTAACCCAAGCATGAGGGGGGAGAAACTGACCCTGAGTGCTCCCTCACTAGCCAGCCAGTCTAGCTGAAACAGAAGGGTTTCAGTTTAGAGTCCCTTTCTCAAGAGATCGAGAGAGCAACAGAAGACACTCAACATGCTGCTGTCTACACACAGGTGTGCTCACATCCACATACCATCCACACACAAAAAGCTATTAAGAGGAAAGGGTTGTATGCCTTGCATAATGCTATTGGACAGGCTTCTCAAAATTTACTTGAGCTACTTAGGAAAATCTTAAAATTGAAGAGAATGTATTAAAAATATTTAGTAAGTACTTCACAGGCACCACATTGAGTAGTAAGTTTCACTGCTTTTTTCCTACAG
Seq C2 exon
AGGGGTATTGCAGTCACTGATTGAAAAACACTTCCCTGCTCCAGACAGGAAGAAACTCTATAGTTTGCTAGGAATCGACTTGACAGCCCCAAGTAACAACAGTTCACCAAGAGATAGTCCTTGTAAAGAGAATAAAATAAAGAAGCGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001064:ENSRNOT00000057902:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.411
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:
TGTGTTGTAATTGGTCTGCAGTCC
R:
TTCTCTTTACAAGGACTATCTCTTGG
Band lengths:
230-2214
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]