BtaINT0078243 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009080 | ITGB6
Description
Bos taurus integrin, beta 6 (ITGB6), mRNA. [Source:RefSeq mRNA;Acc:NM_174698]
Coordinates
chr2:36257395-36260215:+
Coord C1 exon
chr2:36257395-36257474
Coord A exon
chr2:36257475-36260010
Coord C2 exon
chr2:36260011-36260215
Length
2536 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
TATTGTTTTTTCTCTTTTAGAAT
3' ss Score
11.86
Exon sequences
Seq C1 exon
GTGGCTGTGCTGTGGGGGGTGCGGAGACCTGTGAGGACTGCTTACTCATTGGACCTCAGTGTGCCTGGTGTTCTCAGGAG
Seq A exon
GTAAAACCAACGACCTCAGCGTGTTTGTAAAAAGTGCACTTACATTTACGGTAATTCCGTCTGTGACTGTTCTCACAGTGTTCCACTTTCCGTGGTGTTATAGGAGTGACACAAATCAGGAAGGGAGAACGTAAACATTAGTGATGCCAAGTGTTCTTCGTGTGATTACATTCCAAAGCAATTTGAGAAAGAGTGAATGTCAAATTATTTTGAAATATGTGAGCTCAAGATTCTTTCTTTGACCTGATGCCTCCTCTTATTTTAAGGCCATTTCTTCCTGCTCACATGTAAAATGTTGAGGCTCTGGGCAACCAGAGCTCATGGAGGTGATCTTTTCTCAAGTTAAACATACGTTTAATTTCAGTATCATAGTTCTATTCCATCTGGGGACCAGCATCCTTTCTGAATCACTAACAGGATCCAAGAGAAGGCTCGGGGTCAACTTTACTGTTCAAACATTATCCAATTCTTTTAAAAATTACATCCGCTGGGTGACTCTGTACCACAATGATGACAGAACCTGAAGCAGACATCCCTATCTGATCAGACTGAACACTATGTGAAGGTAGCAGGGGGATTGGGGATGTATAACAAGCCATCCTGAATCATGGCTTCCGGCAACACTACAGAGGAATCTGTAAATGATTCCTGGTAAGAAAGACCTGTATTAGCTCTTTCTGGATTGAAAACAGTTCTTTACTAAATCTCATAAAGAGAATCTCAACACAAATCAACCTGTCAGATTCTTGCCAAATTCAGCAAGAACTGACTAGCATGTTCAAGGGGAAAGAACCTGGTTGCCCAATTCAAAACCAGCCTGTGGCTGCTAAAACCCCACATTTCAGTTACCTGTGTCCATGGAGGGAGGGCTCACAGAGCAGAGCACAAACCCAACTCAGTCCCTGACCTCTACCGAGAGGGTCAAGCAGAAGGGCAGTGACTTTGGGCTCATATATCAAAGCAGCTTTGGGAATATACAAAGAGGGAAAAGCCCACATTTTTTGTCATTGACTCCCTGAAGAAGACAATGTTAGGTTCATGCCAGAGACATAAAACAACAGATCAGTCTAACAAAGTGCCCACCTCTAAAATTTTCATATAAAAAAAAATTTTTTTTTGCACCCATTGAAGAGAGCCTCTTAAGTTACACCTGATAGGTTTTCTTGTGGCTAATACTCTGTAGTCAAATCTAGTCAAAAGGCCAGATTATTCTGAGAGATCACTCACTGATATAACTAATAGTAGAAGTATTATTATCAATAGAGACAATTGGAGCCAAAAGTAAATTAGGCTTCTGCTTAGAGCAGACAGAAAAATGGTTCCAGGGTTAACGCCACCTCTGATCTTGTGGCAAACATAGTGATTATAGGTTCTATCAGTGACACAGTGTTAAGAAGGATTCTGAGGGCTTGTTAAGCCACCTTGTGCTTTGGATAAATCATGGGAAATTACAGAATTTGTTACCCCTCACCAGGGCCTCAAATATACACAGGCCTGGCTGAAAGATAACAAATTATATTCTCAAAAGTCAACTTTGGGAGAAATGTAGCTTTCTTAGTTGGTGAAACAGCAGGAATGGTTTAGAATTCCAGTGAATGAAGGAAAACAGTATGAACTTGGTTTGTTTCTCTCCAAGCCTGAGAGACAACAGGCCTGAAGTTCAACCTTGCCTAGAGCCTCACCAACTCAAGAGCAGCCTTGGCTGGTGGGTAAGATAGGTGTTATCTCTTGACTATATCTTTCTGTTCTGAGTGTTCCAGGGTTGGATGGCTGCATCTCTGCCTGGGAACACCCATCTCCCTGCCTCTGGAAACTCAGGTGGATAAGAGGGGAATTGGCAGACTCCTGAGTCCTAAGCAGGAAAGCAGTCTCTTACACCATTTCTCTTTCATTTTGCTTCTCCACATGCCAGTGTTGGAGAAATTTCTAAAAGATCTTAAACTAGAATAACGTCCCCAAGAGGTCAACTTTGGTGAAGTAATACTGTAATATAAGAGTAATACATCCACAAATTAAACCAGGACAGAGAGTAGATAGGGCAATATCACAACCTTTGACCTTTGGGAAGCCACGGAAAAGCCTCTTTGTCACTGGATTTAGCGATAGACACACTGAGAATTTGGACAGTCCCAGGATCACATGTACCTGCAGGTTATCCTCAATGATAATTCACATGATGATGTCAGCTCTGTGACCCAGTTATTTCAAAGATCTGGTCACAGCACAGGAGAAGCTTTTAAAAAGTGAGCATTAAAAAGAAAAATGAAAGAAAAGGGAAAAAAGGAAAAAATAAATCAAGTGAATTCACTTGAATACAATTAAAAGGAAACTCCACTCTTACTCAGAATTTTACTGGCAGAATTCTATGGTTATTTTGCTATACTTTAGACCTACATTCAATGTCAGGCATGTGGGGATATAATACATCAAGGCAAGATACCTAACTAGCAAACAAGCAAAAAATAATCTTATAAAAAATGTCTTCTTTTTATTCTTTATTGTTGTCTTTCTCTCTTTATTGTTTTTTCTCTTTTAG
Seq C2 exon
AATTTTACGCACCTATCTGGAGTTGGAGAAAGATGTGATACCCCAGCAAATCTTTTAGCTAAAGGATGTCAACTAACCTTCATCGAAAACCCTGTCTCCCAAGTTGAGATACTTACAAATAAGCCTCTCAGCATAGGCAGACAGAAAAATAGCTCCGACATCGTTCAGATTTCACCTCAAAGCTTGGCTCTTAAACTGAGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009080:ENSBTAT00000011972:3
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=PU(4.0=63.0)
A:
NA
C2:
PF0036213=Integrin_beta=FE(16.0=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:
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]