BtaALTA0015196-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000015910 | ITGB1
Description
Bos taurus integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12) (ITGB1), mRNA. [Source:RefSeq mRNA;Acc:NM_174368]
Coordinates
chr13:20273206-20274108:+
Coord C1 exon
chr13:20273206-20273376
Coord A exon
chr13:20273674-20273946
Coord C2 exon
chr13:20273947-20274108
Length
273 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGA
5' ss Score
5
3' ss Seq
GTTTCCATTCCCTTCTCCAGGCG
3' ss Score
9.29
Exon sequences
Seq C1 exon
GGGAGCCACAGACATTCACACTAAAATTCAAGCGGGCTGAAGACTATCCCATTGATCTCTACTACCTCATGGACCTCTCCTATTCCATGAAAGACGACTTGGAGAATGTGAAAAGTCTGGGAACAGATTTGATGAATGAAATGAGGAGGATCACTTCAGACTTCCGAATTG
Seq A exon
GCGATCTTCCCGACCCAAGGATGGAACCTGGATCTCATGGATTGCAGGCAGATTCTTTACCATCTGAGCCACCAGGGGAGCCCTTCTTACTGGCTGCCATGTTATTTGACACACATTACACCACATAGAGAATAAACTGCATGTTTGTTGTTACAGGAGTTTACTCATTCATTTGTTGATCTTATAAACATGTTGATTACTTAGAGTTGATTTTTTTAATGCAGTTTAACCATCCACCCTCCATCCTCACTGCATGTGCGTTTTCCTCCACAG
Seq C2 exon
GGTTTGGTTCTTTCGTGGAGAAAACTGTGATGCCTTACATTAGCACAACACCAGCTAAACTCAGGAACCCTTGCACAAATGAACAGAACTGCACGAGCCCATTTAGCTACAAAAATGTGCTCAGCCTTACTGATAAAGGGGAAGTATTTAATGAACTTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015910-23-15,23-14-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.2=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(18.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGCCACAGACATTCACAC
R:
AGGCTGAGCACATTTTTGTAGCT
Band lengths:
298-571
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development