BtaINT0078260 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018993 | ITGB7
Description
Bos taurus integrin, beta 7 (ITGB7), mRNA. [Source:RefSeq mRNA;Acc:NM_001105365]
Coordinates
chr5:26968517-26969018:+
Coord C1 exon
chr5:26968517-26968675
Coord A exon
chr5:26968676-26968922
Coord C2 exon
chr5:26968923-26969018
Length
247 bp
Sequences
Splice sites
5' ss Seq
TTTGTGAGT
5' ss Score
5.91
3' ss Seq
GTCCCCACTCCTTGCTCCAGGAC
3' ss Score
7.9
Exon sequences
Seq C1 exon
AAGCAGATTGGCTGGAGAAATGTGTCCCGCCTGCTGGTGTTCACGTCAGATGACACATTCCACACAGCTGGGGACGGCAAGCTGGGCGGCATCTTCATGCCCAGCGACGGACACTGCCACTTGGACAGCAATGGCCTCTACAGTCGCAGCCCAGAGTTT
Seq A exon
GTGAGTCGCCACCCTTCCCCACCCTCCCCGTGGGAGCCACACCTCTTCTCCCAGGACCTCTCCCTGTAGCCTCACTGTCCTTATGGTGGCCACCCTGCCATCCTCCTCAGCAGCTCCTCCTCTCCATGTCCCTCCACTTCCCAGCCCCTCCCCTCCTTCTAGCTGGTGGAACCCTGGATTTTCAGGGCACCTTGCATTCTGTGAGGGGGGCCTGGGGTACTCACCTTGTCCCCACTCCTTGCTCCAG
Seq C2 exon
GACTACCCTTCTGTGGGTCAAGTAGCCCAGGCCCTGTCTGCGGCAAACATTCAGCCCATCTTTGCTGTCACCAGTGCCACACTACCTGTCTACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018993:ENSBTAT00000025279:6
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(12.1=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(7.2=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:
AGCAGATTGGCTGGAGAAATGT
R:
CGGTAGACAGGTAGTGTGGCA
Band lengths:
253-500
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]