BtaINT0078276 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003709 | ITGB8
Description
Bos taurus integrin, beta 8 (ITGB8), mRNA. [Source:RefSeq mRNA;Acc:NM_001192875]
Coordinates
chr4:29204567-29207773:+
Coord C1 exon
chr4:29204567-29204701
Coord A exon
chr4:29204702-29207367
Coord C2 exon
chr4:29207368-29207773
Length
2666 bp
Sequences
Splice sites
5' ss Seq
GAAGTATGT
5' ss Score
6.97
3' ss Seq
CCTCTCACCCACAAATTTAGGTT
3' ss Score
7.21
Exon sequences
Seq C1 exon
AAACTCATTTCAGAAGTGAAAGTTCAGGTGGAAAACCAGGTAAAAGGCATCTACTTTAACATTACTGCCATTTGTCCAGATGGGACCAGAAAGCCAGGCACAGACGGATGCGGAAATGTGACAAGCAATGATGAA
Seq A exon
GTATGTGGGTGTGCATTTTTCCGATTTAAAGTAAATTAACTTGTTTGGCATGCTTTCTCATAGAAAACTCAAACCATTCTGAAAACTTTGCTTACTACTGATCTTAAGAATCTCATTTACACTTCAAAGTAACTTTCATTGTCTATTCCTAAAGTTCCTACTTGTTGTACCTCCACTGACTGTTCTCTCAAATTCTCTAGTACTTATTTTAAAATAAATATGTATCATATTAAATACTTATTTAATAATAATAACTTTATTATTATTGATGACACAGCCAGTATATGTTAGGAAATCACATCTTCTGGAACACTAAGTGTCTCTTCTTATATGATGCTAATACCTTTTTGTTTCAAATCTGAAAATTCTCAGAGTAAATGTGAAAGCTGAGGGTAAAAGCAATACAGAAGAATGGGAGTGATGGAGCTGTTGATAAGGATTAAGAATTATAAAATCTTTCACTTTGTGACTGTCCCAGGACACTTATATTATCTCAATATAATGATCTAGGAAGTAGGGAAATTTGTTAAGGACAACAATAAAAAGAAGTGTCATCATTTAACTAAAAAGGAATGAAATATGGAAAAGAGACTCAGATTATAGCAGCATGAGGAAATAGGACCATGGAAGATAGGGATTCTCCAAGGATTTGCACAAGAGAGAGCAAACACACAGAAATACACTTTAAAAAGAAATTCTTGTAGAACAAAGTGATTTTCAGTGAGTCATTTACCTCAGTGAGGCATCAGTTGCTTCATTTTTAAATATAACTTGAACTAGAATATTCTAATCACTCTTCCATCCATCTCTAAGGTTCTATGATGTTATTAATTATTTTAATATCATGCTATACAGAAAGAGCTATTGAAAGATTAAAAATACTACTATTCTGTTAATAAGATTGAATAAAAGAGAATCTTCCTTTCTTTCTAGTTAGAATATACTTTTCCCTCTTGGGAAGTTTAGAATCTGCAGATAGTACAGTTGCTCCAACAAACTGTATATTTGAAATTAATTATTTCAAATTCAAGTTCTGTTGGCTTCTCCATAATCACTCCTTGAATTTTGTCCAAAAGACATTTTATACCAGTTTACAAAAAATATGTTTTATTTACACTGAATATAGAGAAACTTTTTCTTTTGTGCTCCCAAAAAAATAATGCAGTTATTACTTTTTGAGAAAGGATTACCCTCTTAGAATAAGCTCTTTCTTTCAAAATCAATTTTGGCAGAATGGTTTAGCTTACTTCTTTTTCTTTGTCTACATCCCTTTTTTCCCTCATTTTCAACAAAGTGGTATAAACAGTTTGACTGTCAAGAAGAGTCATTTGACCTCTTAATTATAGAAATCCCAAGTTTTGCTCTACTTAATTTTGGCAGTGACCACATTATCTTACAACCTGTTACTCCTTAATATTTTAAAGAGAAAAAAACATTTCAAGTCTGACATCAGTTGTACTGATTTTAATATTATGAGACTAATTCTAATTCTGCATGGATATAGATAACATATAAACCTAAATTTAGATCTTTCTTATTGTGTGTGTGTGTTTGTGCTTGTGTGTATATGTATTTATGTTAGGCTTTTTTGTTGGGATGGATATCTATAATCTATATACATAAGAAAGAGGAAATCTCTATATAGTCATATATATATATATATATATATATATATATATCTCCATATATATATATACACACATATATATATATCCATCCATATCTATTTACCTAATCTATCTCCATCCCGACCAAAAAGCTTAGCACAAATTATTTTTAAATTGTAATATATCTCAGTCTAACATGGAAGAAAACTATAAACCTTGTTTGCCGAATTACCTGAAGATTATAAGATGAGTTAACAAATATAAATACACACACTAAGCCAATTGTGTTGTGGAGAAAAAACTGAGAAGAATTTGGCAAGAGAAAGCAATTATGTAGTTTCATGGGGGAAACCAATTCCTGCCAGGCCAGATCATTAGTTGCAGACTAACATCTCCACTGAGAAAAATGTATGACCTTGTATTGAGATCTTAGGACTTTAAAGTTGAGAGTCCTAAATCTTTTTCCCTTGAGTAACATCAGGGAAAGCCCCATGTTTTCCTCTTAACATTATGTGTAAACTAAAATTTAACTCCAAAACTTTACCTGGGCTCTAGGAAAAGACAAACAAAATAAAAATTGTTCATTTGACAATTGTTCATTTCAGGGTTTTAAACCAGTAGAGCAGAAGCCCTTGACTTTAGTTTATTTGATCTATCTCTAGTCCCAAATATTTGTCGTAACTCCACAAGTTAAGGACTGGATCTAGAAAATGGTCTATTCTCTCTCAAGTTTGCTAAGAAATCATCTGAGGATATAAATGAATGATTAGAAGTAGATACCTTTCAAATAGGTTTGAATCCATGTCCATTTAATGGTGCATGATAGGCAAGTCTCAGTCATTGTATCCTTTAACTCTCCAGTTCCTTAATAAGGAAATAAAATGAAATTAAAAGGTAGTGTTATGTCTACATATGAAAAAAGAATGCATGTGTAATTTATAAATATTAATTTCTTATAGATGGTATAATATTGACTTAAAATATCATTAACATATATAATATTAGTAATAAAAACAAAGTATATAAATGTACTTTTTTCCCTCTCACCCACAAATTTAG
Seq C2 exon
GTTCTTTTCAATGTAACAGTTACAATGGAAAAATGTGATGTCACAGGAGGAAAGAGCTATGCAATCATCAAACCTATTGGTTTCAATGAAACCACTAAAATTCATATACACAGAAATTGCAGCTGTCAGTGTGATGACAGCAGAGGACCTAAAAGAAAGTGTGTAGAAGAAACTTTTCTAGATACCAAGTGCTTCCAGTGTGATGAGAATAAATGTCATATTGATGAGGATACATTTCCTTCTGAAAGTTGCAAGTCACACAAGGATCAACCTGTTTGCAGCGGTAGAGGAGTTTGCATTTGTGGGAAATGTTTATGTCACAAAATTAAGTTTGGAAAAGTGTATGGAAAATACTGTGAAAAGGATGACTTTTCTTGTCCATATCATCATGGAAATCTGTGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003709:ENSBTAT00000004833:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.044 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(10.6=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.9=30.1),PF079748=EGF_2=WD(100=26.5),PF079748=EGF_2=PU(32.3=7.4)
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:
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]