BtaINT0078131 @ bosTau6
Intron Retention
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
chr13:20282401-20285162:+
Coord C1 exon
chr13:20282401-20282633
Coord A exon
chr13:20282634-20284995
Coord C2 exon
chr13:20284996-20285162
Length
2362 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
CTTTGCTTTTCACTTTACAGAGT
3' ss Score
10.45
Exon sequences
Seq C1 exon
AGAATGTGTTCAGTGCCGAGCCTTCAATAAAGGAGAGAAGAAAGACACATGTGCTCAGGAATGTTCACATTTCAACATTACCAAGGTTGAAAATCGGGACAAATTGCCCCAGCCAGGCCAGGTGGATCCCTTGTCCCACTGTAAGGAGAAGGACGTTGACGACTGCTGGTTCTACTTCACATACTCCGTGAATGGGAACAATGAGGCCACTGTTCATGTTGTAGAGACTCCAG
Seq A exon
GTAGAAATCTGATCATTTCAAAGTTTTTTGCATTTTCTTTTATATCTTTCTGCTGCTTAGAGCTTTTGGCAGTTCCCCTCTATCCCTGGGTTGGGAAGATCCCCTGGAGAAGGGAAAGGCTACCCACTCCAGTATTCTGGCCTGGAGAATTGGATGGACGGTCCATGGAGTCGCAAATAGTCAGACATGCCTAAGCGACTTTCACTCACTCAGATCTAGGAACAGCTTCCAGCTACTTTACATGACTACTTTACATTCAAGTTGGGGCATTTTGAATCTCTTCAAGCTTAAAAGAGTATTTAATTAACTATAAGAAATAAGGGAAAGAGAAAGCAAATTTTATGTTATGGAGAGTTTGAAGAGTAAATGCAGTAACCCATATAAAGCCCTTAGCACAGTGCCTGATAGAAGGTACTCAGTAACATCATTACTAGTGATATTTTTAATAGCAGCTTGATTTAGGCTTGGGCACTGGGAAAGATAATTTGTTAAAGGGTATTATATGGCATGAATTTGTTCTGCTTTTCAAGAGATGAATCATTTTTATCTTTTTTTTTTCTGGGAACTTTTAATACGTTCTTAGAATTTTCTACATTTGTGATTATTATTGGAATGTAAGTTTTCATTTCTCTAGGATAAATGTTAGGAATTGGGGAGAGGGCATATATTTAACTTCAAAAGAAACAGCCAAACTTTTTTAAAGCCTCTGTTGTTATTTTGCATTTTCAGGTATGTGTATTTCACATACTGTTTTTTGAAGACCAGAAGCTTAAATTTTACCAGGTTTTTCTTTTGTAGATCTCGTTTCTTACTATGTTAGAACTCTCTTCATAACTCAGCTTCATAAGTATTTTTCTCCTGTGTTTTCTTCTGAAAGTTTTAGTTTCTGGCTTTGCATTTAGGTTCATAACGTATTTTGAGCTGCTCTCAGTATCTGGAGTGGAGGTCCAGTTATTTGTAGGTAGATTTCCAGCAGTTCTTGTACCATTTCTGGAAAAGGCTGACCTCTCTCCACTTTGGGTGAAAATAAGATGACCGTAAGTGTGTGGGCCTGTTTCTGACTTTTGATTCTGTTCCATTAATTTAGGCATCTGTCCCTTAGCCAATACCACACTGTCTCAATTACTGTTGCTTAACGGCTAGTTTTGGTAATGTAAGTTGTCCAACTTTTTTTTTCCTGAAAGTGTTTTTGAGACACTTTGCTAGTTCTCCTACTTCTTTGTAAATTTTAGAATTCACTTGCTTGATATCCCACACATGTCCTGCCAGGATTTTGATTGGGATAATATTGAGTTTATAGATCAAATTGGGAGAGCATTGACATCTTCTAATCAATGAACATAGATAAAATCTCTCCATTTATTCAGGTCTTGAACTTTTTTAAAAATCAGATCAGTCGCTCAGTCGTGTCCGACTCTTTGCGACCCCATGAAACGCAGCACACCAGGTCTCCCTGTCCATCACCAACTCCTAGAGTTCACTGAGACTCACATCCATCGAGTCAGTGATGCCATCCAGCCATCTCATCCTCTGTCGTCCCCTTCTCCTCCTGCCCCCAATCCCTCCCAGCATCAGAGTCTTTTCCAATGAGTCAACTCTTCGCATGAGGTGGCCAAAGTACTGGAGTTTCAGCTTTAGCATCATTCCTTCCAAAGAAATCCCAGGGCTGATCTCCTTCAGAATGGACTGGTTGGATCTCCTTGCAGTCCAAGGGACTCACAAGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTTGGCTCTCAGCCTTCTTCACAGTCCAACTCTCACATCCATACATGACCACAGGAAAAACCATAGCCTTGACTAGACGAACCTTTGTTGGCAAAGTAATGTCTCTGCTTTTGAATATGCTATCTAGGTTGGTCATAACTTTCCTTCCAAGGAGTAAGCGTCTTTTAATTTCATGGCTGCAGTCACCATCTGTAGTGATTTTGGAGCCCAGAAAAATAATCAGTATTCAGTAATTTTTAGCATATAAATCTTGTACATGTTTTATTAGGTTTATATATAGGTATTTCGTGATTTTGGTGCTATTGTAGATAATACTATTTTCTGAGGTTCAGTTTCTAATATATAGAAATCCGTTTTGGTATAATTCATAGAAATACATGATTTTTACTTACTGACCATGTACCTTATGATCTTGTAAACTTATCTGTTACTTCCAGTATCTTTTTTTATAGGTTCTTTTGGATAGTGTGCCCCAAGACTTCACTTATCTTGGAGTTTCAATTCCTGTGTCTTTTGTGAGACTGCACAGCTCTCTGTAGTTTTGGCTGCACTTTCACAGGCTAACCCCCTTGTGTGCGTATCCTTTGCTTTTCACTTTACAG
Seq C2 exon
AGTGCCCCACTGGTCCAGACATTATTCCAATTGTAGCAGGTGTGGTTGCTGGAATTGTTCTTATTGGCCTTGCATTGCTGCTGATTTGGAAGCTTTTAATGATCATTCATGACAGAAGGGAATTTGCCAAATTTGAGAAGGAAAAAATGAATGCCAAATGGGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015910:ENSBTAT00000056716:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=FE(87.6=100)
A:
NA
C2:
PF079657=Integrin_B_tail=PD(6.7=10.7),PF087256=Integrin_b_cyt=PU(53.2=44.6)
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