BtaINT0078258 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018993 | ITGB7
Description
Bos taurus integrin, beta 7 (ITGB7), mRNA. [Source:RefSeq mRNA;Acc:NM_001105365]
Coordinates
chr5:26966636-26968151:+
Coord C1 exon
chr5:26966636-26966806
Coord A exon
chr5:26966807-26967909
Coord C2 exon
chr5:26967910-26968151
Length
1103 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
ACCTTCATGACTCCTCCCAGGCT
3' ss Score
6.04
Exon sequences
Seq C1 exon
GGGAGCCCCAGCAGCTCCGGGTCCGCTTCCTTCGAGCTGAGGGATACCCCGTGGACCTGTACTACCTTATGGACCTGAGCTACTCCATGAAGGACGACCTGGAGCGCGTGCGACAGCTCGGGCACGCGCTGCTGGTGCGGTTGCAGGAGGTCACTGACTCCGTGCGCATTG
Seq A exon
GTAAGCCCCGCGGAGCCCTGCCCGCTCCTGCCTGCCCTCTGCCTCTAACCAGCCGCACCCCACCCTCTGCCAATGCCTAGGACACACAAGGGCCTCACCTGCCCTCTCCTGCCCACCCCCCACACTCCAAGAAAATAATCGAAAAGATTCCCTGGAGAAGGGATAGGCTACCTACTCCAGTAGTCCTGGGCTTCCATGGGGGCTCAGACAAAAAGAATCCACCTGCAATGAGGAAGACCTGGGTTCCTGGAGGTGGGCATGGCGACCCACTTATTATTCTTGCCTGGAGAATCCCATGGACGGAGGAGCCTGGCGGGCTCCAATCTATAGGGTCCCAAAGAGTCGGACACCACTGAGTGACTAAACACAGGATAAGAAAGTAAAGCGAGGGTTTATTTAAGTGAAACTGTGCTCTCAAGGGGAGAGAGAGCAGGCAGACTCAGGTGAGAGGCTGCCCTGAGGTTTTTTTCCTGCAAGCCGGTTACCTGGGGCGTAGAAATGAAGGGGCGAAACACTTGTGCCCTCTCCTGGTTTCTAACAGACCTGGCCAGGCCACGGGTTCCTGATATCTATCCCCAGAGACATCTTCTAGGTCAGAGCTAGGGGTCCTGTAGTACCCCTAATTTTACTGGAAGGGTAACTGAGGCCCCGAATCTGGAGAGCCTGTTCAGACAGCTCCCAGCATCAGAGATGCCCTAGACGTGCCACCTGGACACTCCCCTGATGCCTCGTCTCCTGGCCAAGGTCTAAGTGCACCATCCCTGCCGCACCTGCTTGCATCCCTCTGTCCACCATCCCTGCTTCATCTTCTGCTGCTGCTGCCATTACTACACTGCACACTCGAGGCTTCTTTAGCTTCCACCAAACCCCTGCCTGCCACCATCATGTCCTCCTCCTCATATCCATTCCCCACTTCCCTGAGCCTGTGCACTTGCTCCTTTGCCCCTGCTGGGTCCTGGGTCCCTGGCCCTTTAGGACCACCCTCTCCCATTAGCTCCTCTGTGACTGTCCCCCACCCCAGTTTTTGGGGACTCTCTTCCTGAGTCCTTAGCAGTGGCCCCCCACCCAGTGACATCTGGCACTACCTTCATGACTCCTCCCAG
Seq C2 exon
GCTTTGGCTCCTTCGTGGACAAAACGGTGCTGCCCTTCGTGAGCACAGTGCCCTCCAAGCTTCGTCACCCCTGCCCCTCCCGGCTGGAGAGCTGCCAGCCACCCTTCAGTTTTCACCATGTGCTGTCCCTCACTGGGGATGCAGAGGCCTTCGAGCGGGAGGTGGGACGCCAGAACGTGTCCGGCAACCTGGACTTGCCCGAAGGTGGCTTTGATGCCATTCTGCAGGCTGCCCTCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018993:ENSBTAT00000025279:4
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=0.012
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.3=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(18.6=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:
CCCGTGGACCTGTACTACCTT
R:
AGCCTGCAGAATGGCATCAAA
Band lengths:
354-1457
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]