BtaINT0078252 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018993 | ITGB7
Description
Bos taurus integrin, beta 7 (ITGB7), mRNA. [Source:RefSeq mRNA;Acc:NM_001105365]
Coordinates
chr5:26971252-26971937:+
Coord C1 exon
chr5:26971252-26971475
Coord A exon
chr5:26971476-26971717
Coord C2 exon
chr5:26971718-26971937
Length
242 bp
Sequences
Splice sites
5' ss Seq
GAGGTACCT
5' ss Score
7.63
3' ss Seq
TCTGTGTGGCCCTACCTCAGGCT
3' ss Score
5.79
Exon sequences
Seq C1 exon
CTGTGTCCCCGGCCGCCTGGGTCGACTCTGTGAGTGTTCGGAGGCTGAGCTATCCTCCCCAGATCTGGAGTCTGGGTGCCGGGTCCCCAACGGCACAGGGCCCCTGTGCAGCGGGAGGGGACAATGCCAGTGTGGACGCTGCACCTGCAGTGGACAGAGCTCTGGACGCCTGTGCGAGTGTGACGATGCCAGCTGTGAGCGACATGAAGGCATCCTCTGTGGAG
Seq A exon
GTACCTGGAGACTTGGGGAGAAGGGTGGGGTCAGAGTGGCCCCCCAAGGGCGTTGAGGCTCTGGGAACTTCTTGATACCAAGGGCAGGAATCAGGCTGTGATATAGGGGTTGGAAGTTGTCTGACACACTCGAGAGGGAAATGGATGCACAGGAGCAGATCAGCTCTAGGCAGCCCGTGATGGCATGTGGTGCCCAGTGGCTGTGGAGGATGGTTGTCACCCTCTGTGTGGCCCTACCTCAG
Seq C2 exon
GCTTTGGCCGTTGCCAATGTGGAGTGTGTCACTGTCACGCCAACCGCACGGGCAGAGCATGTGAATGCAGTGGTGACACGGACAACTGTGTCAGTCCTGACGGAGGGTTCTGCAATGGGCACGGACACTGCAATTGCGACCGCTGCCAGTGCGACGACGGCTACTATGGTGCCCTTTGTGATCAATGCTCAGGCTGCAAGACACCATGCGAGACACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018993:ENSBTAT00000025279:11
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:
PF079748=EGF_2=PU(32.3=13.2)
A:
NA
C2:
PF079748=EGF_2=PD(64.5=27.0),PF079748=EGF_2=WD(100=41.9),PF079657=Integrin_B_tail=PU(5.1=5.4)
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:
TTCGGAGGCTGAGCTATCCTC
R:
CATTGCAGAACCCTCCGTCAG
Band lengths:
305-547
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]