BtaINT0078175 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017060 | ITGB2
Description
Bos taurus integrin, beta 2 (complement component 3 receptor 3 and 4 subunit) (ITGB2), mRNA. [Source:RefSeq mRNA;Acc:NM_175781]
Coordinates
chr1:145112428-145113627:-
Coord C1 exon
chr1:145113472-145113627
Coord A exon
chr1:145112524-145113471
Coord C2 exon
chr1:145112428-145112523
Length
948 bp
Sequences
Splice sites
5' ss Seq
TTTGTGAGT
5' ss Score
5.91
3' ss Seq
ACTGGGGGTCTCCTCTCTAGGAC
3' ss Score
9.65
Exon sequences
Seq C1 exon
GAGGAAATCGGCTGGCGCAATGTCACCAGGCTGCTGGTGTTCGCCACGGACGATGGGTTCCACTTTGCGGGCGATGGAAAGCTGGGTGCCATCCTCACCCCCAATGACGGCCGCTGCCACCTGGAAGACAACCTGTACAAAAGCAGCAACGAATTT
Seq A exon
GTGAGTTCAGCATCCTGGGTGGGAGGTGGGAGGGTGTGGGTCTGCCCCAGGGCAGCGGGGGTGCAGGCTCACTCCCAGCCCGGAGTCCAGAGGGGCGAGAAGGGGCCCTCGCTCCCAGGGAGGTGCTTTGATGGCACCGAGAGGGTAGAATTCCCTGGTCTGCTGGCATTGTAATCCCTGGAGCTGCAGAGGATTTCAGAGATGGGACCCTTGGGGCCCTCCACCTGCAGCCTGCAGACTTGAGGCGGGAGGTGGTGGTGGCAGCTCTCAGGGGCCCACCGACTGGGACAGGATGAAGGTGACATCTGAGGTTCCTGTGAGCTTCTGTCTGAAATTGTACATGAGACAGCTATGAAAATAGTGCCACTGTGCTGTTCCCCACTGGCTGAGCGGATGAAGAATCCACCTGCAAGGCAGGAGACACAGGAGACACGGGTTCGATCCTTGGGTTGGGAGGATCCCCTGGAGGAGGAAATTGCAACCCACTCTGGTATTCTTGCCGGGAGAATCCCATGGACAGAGAAGCCTGGCGGCCTACAGTCTATGGGGTCACACAGAGTTGGACATGACTGAGTGACTACGCATGCTGGCGTGCAGCGTCTGTGATCTCTGCCCTACAGCTCAGACACAGCGAGGTGCTGCTCACTCATCTCCACGCTGAGGGTCTGTGAGCCGTTACTTGCCACTGGACTTCTTTTTTGGTGCATTGATTAAGAAGCACACCACAACTTTTAATATTTTCTTGAGTGTATTTCAGTATTGTCCATTTCCCTACTAATCCCACTCTCTTACGTGTTTGCAAACATCACTGGGAACAGCCCCATCACAGCACAAGCAGGGCGGAGCCTCTGCACTCTGGGCAGTCACTTCTGCCTGTAGGGGCTGACGGGTGGCCTGGATGGCTTGTCCCCAGCCTCAGGGCTATCTGACTGGGGGTCTCCTCTCTAG
Seq C2 exon
GACTACCCATCGGTGGGCCAGCTGGCACACAAACTGGCAGAAAGCAACATCCAGCCCATCTTTGCAGTAACCAAGAAGATGGTGAAAACGTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017060:ENSBTAT00000022687:7
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:
PF0036213=Integrin_beta=FE(12.3=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(7.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATCGGCTGGCGCAATGTC
R:
CGTACGTTTTCACCATCTTCTTGG
Band lengths:
246-1194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development