BtaINT0143049 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003525 | STXBP1
Description
Bos taurus syntaxin binding protein 1 (STXBP1), mRNA. [Source:RefSeq mRNA;Acc:NM_174619]
Coordinates
chr11:98358860-98360925:+
Coord C1 exon
chr11:98358860-98358909
Coord A exon
chr11:98358910-98360843
Coord C2 exon
chr11:98360844-98360925
Length
1934 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
ACTGTTCCCTTTGCTTCCAGGTG
3' ss Score
12
Exon sequences
Seq C1 exon
AGATCATGCATGATGTGATAAAGAAGGTGAAAAAGAAGGGAGAATGGAAG
Seq A exon
GTAAGTGGAAGAGCACAATGAATGACCTTGAAGGTGAGTTCATGGGGAAGAATACGAATGGGGTGGCATTGGGGAGAGGCATGCAGGGGAGAAATGAGGACCTTTGCTGCATCCAGAGAATACAAAAAAGCTTCTAAACTTTCAAAAGGTAATCTGCTGTGCCTTCTATGTATATGATCCTGGTTAGGAAATCTCTGGATCAGGAAGCTTATCTTTAAGATCACCTGGTGGGGCATTCTAGCAGTGGAACCCTTTAATTCAAACAGGATCTTACCTGGAACCCATTGATTAAAGCAGAGGGTGGAATTATTCTACTTGCTATGGGAGACAGGAGGGGACCCTTCTTGCCCCTCCGGTGGCCCTAAAGCCTCTCCTGGAGCCCATGCAATGGTCTGAAAAGCCCTCATCTGGCCTATTCCTGTCTGTCTATAGCTACACAAGACAAACCAAGTCAGCTTGTTTGTTCATTTAACATTGAGAGCAATGCTGGAAACTGTTGTGTACCTGAAACAAATATTTAAGTCAATCTAACTGATTATGACCTCAGTCCTGGGAGTGGATGATACAAGTCAGAATCGTGCTGTCCTCCATCCAGGAAGTCAGAGTTTGAAGGACCCTCTGATCATCTGGGACTAGGCATTGGAGTGACCAGGAGGGCACACTCGAACTTCTGTGTGTGTTGTCGAAGGGCTAACCATTCTTGCCCCCGAGTTTTTCTGCAGTCTGGAGCCTCAAGTTCATTGGGCCTTGGAACAGCTTGGCACCAGGAAGCTTTTAAAGTCTTACCCTAACCTCATAAACATAACCTCATAAACATGAGATCACATTTTAGCTAGAGCTTCCATCTTCACACCCAGGGTGGGAGGCCAGTAGGTGGGAACTCTTTCTGCCTGCCTTTCTCTCTCACCCTTCCCGTCAGTAACGGACGTGTGGATATGAAAATTTTAAACTAATCTTGGGGAAGCTGCCTCATGAAATGAAACCTGATTGGTCCTCGTGCTACAGCAAAATGCTTTGGGGCCCACATTTTTCTAGCTCCTGTTGCCTGGCTTTATATCTTTGAAGAAGGAGAAGAGAAAATAACCTTATTTTAGCTTCCTCTCTCCACTGTGGGTCAGATGGAGATGGGAAAGGGTTGCTGAAGAGCTGCAGGTATAATGCTTTTCAACCAGGATGGCATGTTCCTATCCTTCTTTTCTAGACTGAGGTAGAGTTTACTCCTGGACAGCACATGTGCCAGTCCATCCCGATGATGTCTGCAACAGAGACCTCGCCTTCTATCCGTCAGGGTGGCACGAGTGTTCATTCTCCCCTAAAGAGAAAGTTTATGCACTGAAAAAGTCTGGATTGCTCTGAGTGTGGGTGCCGCGTATGAAAGTTTTTTCTTTTTCTTTTGCATTTTTATGAGTAATTATTTTCTTTGTCATCAAAAAACTTTAATTTTTTTAAGTTTGAAAAATCAAGTCATGTTAGTGAGAGCAGACTCTTCTAGAAGCTTAGGTTTGGTAGGGAAATAAAGGTTAGCGTGTATCTTGGCAAACTTCTGGCCCCTAGGAAACCTCGATTACTCAGAATTCTGTTTCTGGGCTCTACCTGAAGTCTGATGTGGTCCGCTGTGCGGAGGCAAGCGTCACAGCAGGTGCCCTCCAGGTTATGAACTGTTCCCTTTGCTTCCAGTGTGAACTATTCCCTTTGCTTCTAGGTGTGAACCGTTCCCTTTGCTTCCGGGTGTGAACTGTTCCCTTTGCTTCCAGTGTGAACTGTTTCCTTTGCTTCTAGGTGTGAACTGTTCCCTTTGCTTCCGGGTGTGAACTGTTCCCTTTGCTTCTAGGTGTGAACCATTCCCTTTGCTTCCGGGTGTGAACTGTTCCCTTTGCTTCCAGTGTGAACTGTTTCCTTTGCTTCTAGGTGTGAACTGTTCCCTTTGCTTCCAG
Seq C2 exon
GTGCTGGTGGTGGACCAGCTGAGCATGAGGATGCTCTCCTCCTGCTGTAAGATGACGGACATCATGACCGAGGGGATAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003525:ENSBTAT00000056141:2
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=PU(0.2=5.9)
A:
NA
C2:
PF0099518=Sec1=FE(4.9=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