MmuINT0154658 @ mm9
Intron Retention
Gene
ENSMUSG00000026797 | Stxbp1
Description
syntaxin binding protein 1 [Source:MGI Symbol;Acc:MGI:107363]
Coordinates
chr2:32650108-32651690:-
Coord C1 exon
chr2:32651536-32651690
Coord A exon
chr2:32650234-32651535
Coord C2 exon
chr2:32650108-32650233
Length
1302 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGC
5' ss Score
8.89
3' ss Seq
CGGCCTCTATTCTCCCACAGGTT
3' ss Score
11.61
Exon sequences
Seq C1 exon
TGCCCGCTATGGACATTGGCACAAGAATAAGGCCCCCGGGGAGTACCGCAGCGGTCCCCGCCTCATTATTTTCATCCTTGGGGGTGTGAGCCTGAATGAGATGCGCTGTGCTTACGAAGTGACCCAGGCCAACGGCAAGTGGGAAGTGCTGATAG
Seq A exon
GTAAGCAAAGCATGTGTTCTGCTGTGGCCTCACTGCTCCTTCACTCCATCCCATGCTTCCTGGCACTTCCATCTTAGGGCCTCCCTCACCCCAGCACCACTTGGCCCCGGATAGCAGAAGCCAGGGCTGTCTGCCACACTGTGTCTCTTGCTGAAGGACAGCATTTTGGAATGGAAAGAGCCTGGGCATAGAGTCCCAAATCCATACAATGACACTGCCCGAGTGCAGTCACTTAAGAAAGAGAGGCTCTCTCCAAGCCATATCATTACCTTGCCTGATGGCAGGGCTGTCACTACTGACCACCTCACCCTCTGTTGGAGGTAGACAGACAGCGTGCGTGTCCATGGATGCTGCTGACCCAGTGGTCGGAAGGGTCAGAAGGGTGTCCTACCCAGGCCCTGACCTTCTGGGCTGCCACACCCTTTCTTGTATTTCCTGTTCACTTCCAAAAGAGCATAAGCCACTGGGGGAAGATGGTCTGTGTGGCAGACGGCACGGCCTGCTCCCTGTCTCCAGAATCATCTGCAGCATCTAGGGCTGACAGACAATCAAGGGAGAGAAATCTGGGTTCAATTGGGTTCATGTGCACTGCTAGAGAGGCGGCCCTCAGCTGCCCAGCCAGAAAGGCTTCCCTCAGCGCACAGGCGCCTGTCCACACTCCCAGGTGAGGTCATCTCAGCGAGTGTCACTTCTGTCTATCCAATTTGGATGACCCAGTCCCGGGACTCCCCAAGCTGTCCAAGCAAGCAGGCTCCATAGGGCAGTAAGATTACAGTTTCTGGGTTTGCCCAGACAGGCATGAGGGGGTCATCACCTTTGCACAACTACATGGGAAGACTGCACACCCCTCCCCAGCTCCCACAGGCAGCCACGATTCATTTCCCTGCTTGTTTTTCTGTCTGTGACATAGGCCCCATGAGTGTTCCCTGCTCACTGCCTGCATATGTGTTGCATGCATGTGTTAGAGGACTCTGAGCTCAAACACAGCTTCCCTGGACAGTAGCTGTCACAGCCAAGCTTTGGGTGTGACCCTTCCTTTTCCCCTTTGGACCTTCCTTAAGGTTCCTTGTGCAGGGGGAGGGTGGAGACCCAGGGACAGAGAGCTGCCCATGTGGGTTCATGGAGGGGCTTCTGAAAGCAGCCACCATCCGCCGTGTGCCTCACGTGTTTTGTGCATGCCTGCATACGTGTGTGCATGTGCCCGTGCATGCTTCGCCTCTCACGCCTCTCCAGCTTTGGGCACTGGGGCCTCCGTTGGCGTGTCCGGGGCGCCTCGTTCAGCCGGCCTCTATTCTCCCACAG
Seq C2 exon
GTTCTACTCACATTCTCACTCCCACCAAATTCCTCATGGACCTGAGACACCCCGACTTCAGGGAGTCCTCTAGGGTATCTTTTGAGGATCAGGCTCCAACAATGGAGTGAGAGCCAAAGAGACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026797-Stxbp1:NM_001113569:18
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(12.4=100)
A:
NA
C2:
PF0099518=Sec1=PD(2.5=37.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGCTATGGACATTGGCAC
R:
TTGTCTCTTTGGCTCTCACTCC
Band lengths:
278-1580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: