BtaINT0143039 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003525 | STXBP1
Description
Bos taurus syntaxin binding protein 1 (STXBP1), mRNA. [Source:RefSeq mRNA;Acc:NM_174619]
Coordinates
chr11:98372608-98374047:+
Coord C1 exon
chr11:98372608-98372715
Coord A exon
chr11:98372716-98373986
Coord C2 exon
chr11:98373987-98374047
Length
1271 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGA
5' ss Score
5.9
3' ss Seq
TGCCTCCTTCTCTCTTCCAGGGA
3' ss Score
12.55
Exon sequences
Seq C1 exon
GTACGAGACGAGCGGCATCGGGGAGGCGCGGGTGAAGGAGGTGCTCCTGGACGAGGACGACGACCTCTGGATAGCGCTGCGCCACAAGCACATCGCGGAGGTGTCCCA
Seq A exon
GTAAGAGCCTGCCCTGCGCCTGCCCCGGGCCCCAGGGCTCACCCCACCGACACGGCGGGGCGCGGGTGCTGGGCGCCAGTGTGCGTTCTCTGGGCTCCTTGGGCAGAGCTCACCAGTGCAGGCAGGAGTCCCTTGCTTCTGCTAAGTCACCTACCTTCTAACCAGTGATGATGAATCCCGTCTGATATCTGAGCTCAGGCTATACCAATCTCATGAATTTAGAAAACCCTTTCCGTGTTAGGATTACTTTTAAGGTTTTTAGAAAGCATTTATAGAAAGCGTTTTCTCATTTCAAGATGCTTTATAAACACTAAACACTTGAAGCCAGTTTGTTCCATTGAAAGATCTACTACATACAATTTAGGGTTTTTGTTTTTAAATATATAGCTGGTATGTCTCCTTCCTCCTTGTTGTCATACCTAAACTTATTCTCAGCAAGAGTCAATGCATATACTAATCTCTATATGGAAGGGAGTACCTTGCTCTGAAAATGTTTCAAAATGTTTCTAACTCTGGAAAGTTTTTATTAGGCTGTTAAACTGTAGATAACAAGTTTGCTTTTGCAGAAGGACACATTCTGCTACACTGAGTTGATAATATCCACAGGAAGTTCACAAGGAACAGTGAGAAAATACTAATAGCCTGGGATAGTTGCTTAGAAAAGTATTCTCCAAACCTTGGAGGATCATTCAACTTTAGAAAAACGTTACTTCACATTTGCAGTTATCTTATTTTATTTATACATTCAATATATGCTTTATTGTACTAATGTGTATATTTGATAGCATATACAAAAACATAAATTTGAAAAGGATGAAGTAAAATTATATACATGGATGTCCTAACATTTTCTTTTCTGTTCACAAATTGTCTTGTACACCCAACTCTGGAGACCCCTGGTTTAGAGTATTAGGAAAATGGCATATCTCTCTCTCCTCTTAGAAAATCACTTGAAATCTATACCTAAGGGCAGGAAAAGTCACTGCATAGTCCTAAAGGAAGGATGTTGTGTGACTCTTTATAGGCAGTGGTCCCCAACCATTTTGGCATCAGAGACCAGTTTCATGGAAAACAGTTTTTCCACGGATGCAGAGTCAGGAGATGGTTTGGGGATGATTCAAGTGCGTTACATTTACTGTGCACTTTATCTCTATTATTACTACATCAGCTGCAGCTCAGATCATCAGGCGTTAGATCCCGGAGGCTGGGGACCCTGATACAGAGGCACTTGGTGCCACATTGAAGCTTAGCTGCCTCCTTCTCTCTTCCAG
Seq C2 exon
GGAAGTCACCCGTTCTCTGAAGGATTTTTCTTCCAGCAAGAGAATGAATACTGGTGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003525:ENSBTAT00000056141:10
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=0.571
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(6.5=100),PF140711=YlbD_coat=PU(28.0=75.7)
A:
NA
C2:
PF0099518=Sec1=FE(3.6=100),PF140711=YlbD_coat=FE(20.0=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:
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]
SPECIAL DATASETS
- Pre-implantation embryo development