RnoINT0145640 @ rn6
Intron Retention
Gene
ENSRNOG00000000994 | Stxbp2
Description
syntaxin binding protein 2 [Source:RGD Symbol;Acc:619967]
Coordinates
chr12:2188088-2189387:+
Coord C1 exon
chr12:2188088-2188197
Coord A exon
chr12:2188198-2189291
Coord C2 exon
chr12:2189292-2189387
Length
1094 bp
Sequences
Splice sites
5' ss Seq
GCGGTACGT
5' ss Score
10.27
3' ss Seq
CCCCCCAACCCCTTCTGTAGGGC
3' ss Score
7.54
Exon sequences
Seq C1 exon
GTGTGAGTGAGGAAAATCTGGCCAAGCTGATCCAGCATGCTAATGTGCAGTCCTACAGCAACCTCATCCGGAACCTGGAGCAGCTGGGGGGCACTGTCACCAACTCTGCG
Seq A exon
GTACGTAGGGAGCTGATGAACGGTGGAGTGTGGCCCTTAGAGGATTGGGGGTGATACATGCTTAGCTTGGGTATGCGAGCATAGGGGACCAAGAACACCAAGACCTTCCCTAATTCTCTAACGTGATGGGCAGTGGGGTTACATTGGTGCCCCTGCATGGCGGTACAGGGTGTGAGCTTTCAGGGGCAGGTGGGAGAACGAGTCACCATTAATGGGAAACAGGGTGAAACTAAGGGTTCTGAAGGGATCGGCAAACTTCTCACCCTACCCAGTATACATGGTGGTTTCCTATGCTCCCCTCTGTAGTCTGCCTCTCCCTAACCTATGTGTCTGGATTTGTCAGATCTTTCTGTAACACAGACCTGTGACCTTGTGTCCTTCTGTCCCCCTCTGCCCCCTCTCTCTCATACACATTATTATTTTGAGGCACATTTCACTTTGTAGCTCGGCTAGCCTTGAACTTACTCTGTAGCTAAGGCTGATCTTAAACTCACTCTATAACTCAGACTGGCCTCAAATTCACGGCCATTGTGTTAGCCTCCTGAGTATGTGGGACTACAGAACCTGGGACTACAGAACCTGGGACTACAGATGTGGGCTATCATGCCTGTCTTATCCCTTGCCTCTTCCTGTTTCTGTAGCTTTTACTTGACTTACTCTTTCTTCTTTTTCTTTGTTCTGTTTCTCTCTTCCCATTTCTGTTTCTTCTGTCCCCCTTTGCATCCCCACTCCCTACCTCCCTGCCTTTGTGTCCACCTTTGTATCTGTGTCTTATTACGCCCCTCTGTTTCTCTCTTTTCTCCTTGTCTCTGTCTCCTGCATCTCTGTCTCTTACCTCCCATGTCTGTCTGTCTTTACCTGTCTTTCCATCTTTCTTTGTCTCTCTGCCTCTCTCTACCTCTGTTTCTGCCTCCGCCTATCTATGCCTCTCGAATTCTCTTTGCCTCTGTCTCTCTTTGCTTTTCCTGTCTTTCTGTCTCTGTCTCTTCCTGCTCTATTTCTCCATCTCTCTGTGCACCCCCATAGCCCTTCCCCATCTGCGATGGCCTCCTTCCCTTCCCAATCCCATTCCGCCCCCCCAACCCCTTCTGTAG
Seq C2 exon
GGCTCAGGGACCTCTAGCCGGCTGGAGCGGAGAGAACGCATGGAGCCCACCTACCAGCTGTCTCGCTGGTCCCCAGTCATCAAGGACGTGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000994:ENSRNOT00000001322:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.375
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(6.5=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.6=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:
GTGAGTGAGGAAAATCTGGCCA
R:
CACGTCCTTGATGACTGGGGA
Band lengths:
198-1292
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]