RnoINT0145629 @ rn6
Intron Retention
Gene
ENSRNOG00000015420 | Stxbp1
Description
syntaxin binding protein 1 [Source:RGD Symbol;Acc:3785]
Coordinates
chr3:11854082-11856088:-
Coord C1 exon
chr3:11856010-11856088
Coord A exon
chr3:11854186-11856009
Coord C2 exon
chr3:11854082-11854185
Length
1824 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
GTCTTTTCTCATTTTTGCAGCAT
3' ss Score
10.34
Exon sequences
Seq C1 exon
TCTGTCCACTCTCTCATCAGTGATTTTAAGGACCCGCCGACTGCTAAATATCGGGCCGCACATGTGTTCTTCACAGACT
Seq A exon
GTAAGTATTGCTGGCCCAGGCTGGCATTTCCCCACAGCTCCGCTGAGCCCAAGCCAGGGCAGGGCAGCAGAAGAAATGGGTGGTGCTGTAGTCATTTGATCTTCTCTCTTCAGCTAATGAGCAGTGTAAGACACACACATGCACAAGCATATACACACACACACATGCACAGGTGTACACACACAAACATGTGAGCATACATACATGCACAAGTGTATACACACATGGATATACACACATACGTGTGAGCATACACACATGAACAAGTGTATACACACATGCACAGGTGCACACACAAACATGTGAGCATACATACATGCACAAGTGTATACACACATGGATATACACACATACGTGTGAGCATACACACATGAACAAGTGTATACACACATGCACAGGTGCACACACACAAACATGTGAGCATACATACATGCACAAGTGTATACACACATGGATATACACACATACGTGTGAGCATACACACACATGAACAAGTGTATACACACACATGCACAGGTGTACAGACACATACATGTGAGCATACACACATGAACAAGTGTATACACACATGGATATACACACATACGTCTGAGCATACACACATGAACAAGTGTATAAACACACATGCACAGGTGTACAGACACATACATGTGAGCATACATACATGAACAAGTGTATACACACACGGATATACACACATACATGTGAGTATGCACACATATGAACAAGTGTATATACACACATGCACAGGTATACACACATGCGCAAATGTACACACATACATGTGAGTATGCACACACATGTACAAGTGTATATACACACATGCGGAAGTGTATACATACACATGCATAGGTGTACACACATACATGTGCATGTATACACACATGCACAAATGCACATCCACAGACCCACAAGTATACACACTCACACATGCGCAAGTGTATATACACACTTATGCACAATTATACACATACGTGCATGAGTGTATACACACACATGCACAAATGTGTAACACTATCAGAAGCAGGAGAAGAGCTGTAGTTTAGCTGTTTTTCTGATGAAAGATATCCCAGCAGGCTCCTCCTCTAGGAGTGAAGGGGCTGCTGCTGAGTAGAAATTCCTAGTGCCCCACTGTACATCCATTCCAGCGTCTCTGTGGCCTGTGGGCTGTTTCCCTGAGCTCTTCCGACCATAACAGTTCCAACCAGCTGACCCAGAGTTGGCTTCCTGACTTGGTGCTGGTCTGTGTGTGGCTAAGTTTTTTGGAGTGGGGCAGCTACAGGGTAGAGTGGTAGCCTTGCCACTCCTCTCCCCCAGGGTAACCACAGCTGACACTGAGAATGCAGAAAAGGAATGTAACCTCGAAGATGAAAACAAACGGAGCACAGCGTTGGTGACCACCAACCAGTGGGCACCTCCTGGCACCTCAGGCTGTTTTTCCACCAGGGGCCTCCTGTTCTGTTGCTCTCGGCTCTTTGTCATCAGTGACTCAGATACATGTGCTTTCTTCCTCACCCTATCTCACGGCGTCTGCTCTTTGCTCTCCTTTCCCTGGAAGCAGCAGCTACTTTTCATTAGCTTCTGTATCACGGTCACAGTCGGCCGCTGTGTGCGGGGTTGAGGCCCCGCAGGTACGTTCCTGTCTCCAGGCCCCCCCACCCCACCCCGTGCTGGATAGCTGAGGACAGGGTGCAGTCATTACTAGGTGCCTTTTTAGAATCTGAGTGAAAAGAGGTGCAGTGACGTCATGGCTGTTGACTGAGCTGGCAGATGGATGGACTGCCGGCCGGACAGAAACCCTGCTGTCTTTTCTCATTTTTGCAG
Seq C2 exon
CATGTCCAGATGCCCTGTTTAACGAGCTGGTAAAATCTCGAGCAGCCAAAGTCATCAAGACGCTGACGGAAATCAACATTGCGTTTCTCCCCTATGAGTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015420:ENSRNOT00000021178:5
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=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(4.7=100)
A:
NA
C2:
PF0099518=Sec1=FE(6.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGTCCACTCTCTCATCAGTGA
R:
TGGGACTCATAGGGGAGAAACG
Band lengths:
182-2006
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]