RnoINT0145623 @ rn6
Intron Retention
Gene
ENSRNOG00000015420 | Stxbp1
Description
syntaxin binding protein 1 [Source:RGD Symbol;Acc:3785]
Coordinates
chr3:11833194-11835871:-
Coord C1 exon
chr3:11835770-11835871
Coord A exon
chr3:11833280-11835769
Coord C2 exon
chr3:11833194-11833279
Length
2490 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGT
5' ss Score
7.7
3' ss Seq
AGTCTCTCTCTCCTCTCTAGGAC
3' ss Score
11.36
Exon sequences
Seq C1 exon
TCCACACTACGCCGCAGAAGCAAGCCGGAGCGGAAGGAGCGCATCAGTGAGCAGACCTACCAGCTCTCACGATGGACCCCGATCATTAAAGACATTATGGAG
Seq A exon
GTCAGTTTGGGGTTCAGCAGCAGGATCCAGGGCTGCTCTTCAGTGGGCGGTCCAAGTTCCAGCACCCCCGTTTTCAGGCATCAGTGGCTACTGTGCTTTGGTTCCAGTCCTCTGGGGCTCTGTCAGTCTCTGAGGACTCAGGAACACCCACGGACTGATCTTACTTTAGGTTACTGTTGCTGTGATGAAACACCATGACCAAAAGTAACTTGGAGAGGTGGGGCATCACTGTTCATCATGTAAGACATTCAGGGCCAGAGTTCACACAGGACAGAACCTGGAGCAGGAGCTGATGCAGAGGCCAGGAGGGTGCTGCTTACTGGCTTGCTCTCATGGCTGACTCAGCCTGCTTTCTGAGCACCCAGGACCGCCAGCCCAGGGACGGCACCACCCACAGTAATTTGGGCCCTCCTGTATGGCTCACTAACTAAGAAAATGCTTCGTGGGTTTGCCTACAACCTGATTTTAAGGAGGCAAGGTTCCCTCCTCTCATGTCAAGTAACACTAGCCCGGAAAGACAGACCATGGAGACCTCAAGATCCATGTGCCTACTGCTCCAGTCTCAGGGGAGATAGCCCCATACTTTAGAAGTGCCTCTGTGGTGTAGGACCTAGAAGGGTTAGACTCACATCACTGTCTCTTAGTTAGCATTGCTGTGAAGAAACACCATGTCTAAGACACTTTTTCTAAAGGAAAACATTTAACTGGGGCTGGCTTACAGTTTCTGCAATTCAGTCCGTTATCATCAAGGCAGGAAGCCTGGCAGCATCCAAGCAGACATGGTGCTGGAGAAGGAGCTGAGAGTTCTCCATCTAGATCCACAGGCAGCAGGAAGAGACTCTCTAAGCCGTCTACACGCTGACACACTTCCTCCAACAAGGCCACACCTCCTAATACCTCCGTTTTGCATAGGACAAGCGTATTGGAACCACCACAGTCAGGATGTCATGTTCAGATGAGGAACATGCACAGACTACTAGGGGACATGGTCCTTCTAGATCCCATCTCAGCCAGGTGTGGAAGGGCCCCCATGGAGGCCACAGCCCGCCCACCTCCCCACACTAGCAGACAGACCTGGGCTCTGTGCCTCAAGCTTGCCCCTTGGACTATTCTTGTCCTCATCTCTACTTCCTGGCCCTACTTCCCTTCCGTCTCTACGAGGTCCCACGTTGTATGGCACTTCACATGTCTGACCGTCCAGCATCCCAGAGTCTGTTGCATTCTGGTCAGCAACGCTATTTACATACAGCTTTGCTATTCAGGTTTTGAATTGAGATTGGGTCTCATGTCCTGGCTGACCTTGAACTTATGATATATGCAAGGATGATCTGTAGCGAAGGATGATATTGAACTTTTTTTTTTTATAAGATTTATTTATTTATTTTATATGAGTACACTGTGGTTGTCCTCAGACACACCAGAAGGGGCATCAGATCCCATTACAGATGGCTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCTGTTCTCTTATTGGCTGAGCCATCTCTCCAGCCCGATATTGAACTTCTAATCTCCTTTCTCTCTCCCTTAATTGCTGGATTCAAAGCAGGTACCACTATGCCCAGTAATGTAGTACAGGGACCAACTCAGGGCTTCATACATGCTGTACCCGACCAACCCAGTCACATCTTCTAATAGGATGATTCTGTCACTTGGTGCCTTGTGTCTATGGCATAGAGCCTGCAGCACACTAGGCTGTGGCCCCATGTTTCTTGGCTGTCAAGGGATGAGAGGCAGTGCTTCGCAGAAGCTCTTTAGAGTCACTCCCACCCCTCAACATCACTGCAGGAACCCTGCAGAGTCCTCCACCTCTAGGTTCTTAAGGTTGGAGGGACAACAGACCCAACTCCTCACTTGATAGGCAAACAAAATGGGAGTGCAGAGAGTGACACCTCGCCTCGCGCCCCTGAGTGAGCTCAGGGACTGCTACCAACTTACATGCTGGAAGAATAGTATTTGTGCAGGGTGAGTCAGCATCCTATTTTTAAAGCCTACAAAACCAAAGGATGGGCGGCTGTGGCACACCCAGGAACCAATTGCCTGTCTCAGCTGTGGGGCTGAACGTTGCCGCCTGCTCTTCCACCCCTCCTCCCTGCTCCCCAAGGACACCTGCATGGGCTTCTCATGTTGCTCCTAAGTGGAGTGTGGATTTCTAAGTGGCAGGAGATAGCGGAATCCATCCATTAGACAATTAGCCCCTTGACACACTGCAGGGGAGGCTCAGACCCAGTTGTCATGAGGCTGACATGTTGGGAACTGAGTGGACCGAGTACTGTTTGGTCTTGATGGGTTATTCGATGGAGAACATTGCAGAGCTGAGAGAAGTGAGTGCCTTGCTGTTTGACAGAGGACCCATAGGGCCAGGCTGCAGAATGACTGCCCCACCTCCTGCCAGCCCTTTCAGGCACACGGTGGCCTGACCTCAGTCTCTCTCTCCTCTCTAG
Seq C2 exon
GACACCATTGAAGACAAACTGGATACAAAGCACTACCCATACATCTCTACCCGCTCTTCCGCATCCTTCAGCACCACTGCTGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015420:ENSRNOT00000021178:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.382 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(5.9=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]