RnoINT0145649 @ rn6
Intron Retention
Gene
ENSRNOG00000000994 | Stxbp2
Description
syntaxin binding protein 2 [Source:RGD Symbol;Acc:619967]
Coordinates
chr12:2183616-2184438:+
Coord C1 exon
chr12:2183616-2183764
Coord A exon
chr12:2183765-2184353
Coord C2 exon
chr12:2184354-2184438
Length
589 bp
Sequences
Splice sites
5' ss Seq
CAAGTGGGG
5' ss Score
0.53
3' ss Seq
TTTGTCTGCATCACCTCCAGGGG
3' ss Score
8.99
Exon sequences
Seq C1 exon
GTGTTCTCTCTGGATGCCCCGCACAGCACCTATAACCTTTATTGCCCATTTCGGGCAGGGGAGCGGGGGCGGCAGCTCGATGTGCTGGCCCAGCAGATAGCCACACTGTGTGCCACTCTTCAGGAATACCCATCCATTCGCTACCGCAA
Seq A exon
GTGGGGACCAACCCCCACCCTACCCCAGTGCTACCTTTTACCCTCGCTCTCATTCTGTGTCCATGCTTTCCCCTATGCGTGTGCATGTGTGACTGTGTGTGTGTATGTGTGTGTGTTTGGAGGTCAGAGGTCAACCTCGGGTATCTCCCTCAGTCACCATCCACCTTTTATTTTTTTAAAGATTAAAAAAAAAGTTTGTGTGTGTGCATGTGAAGGTTCTCATGTAGATCAGAAGAGGGCGTCAGACCCTCTGGAGCTACAGTTATGGGTGGCTGTGAGCCTCCAGGTGCTGGGCAGAGCAGTTCGAGCCTTTGACCACTTAGCTGCCTTTTTGAGAGAAGGTTCTCCCTTGGCCCAGGTTTCCCATCCAGGCCCAAGGATCCATGTCCCCAGCACTGAAAACTCAAGCACACTTTTAAGTGCTCTGGGGGATCGAGCCTGGCTTGCATTTTACTGACTTAGCCATTTCCCCAGCTCCTGTGTTGTCTTTAACTTGACCCTCACCCCTACCCTTGATGTCCCCAGTCTGTGCCCAGTCCTCCCAGCACCCATATCCTCATGTCCCTGTGTTTGTCTGCATCACCTCCAG
Seq C2 exon
GGGCCCAGAAGACACAGCCCAGCTGGCCCATGCTGTCCTGGCCAAGCTGAACGCCTTCAAGGCAGACACTCCCAGTCTGGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000994:ENSRNOT00000001322:7
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=0.138
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(8.8=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.1=100)
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:
TGTTCTCTCTGGATGCCCCG
R:
ACTGGGAGTGTCTGCCTTGAA
Band lengths:
224-813
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]