BtaINT0141866 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67744037-67745869:+
Coord C1 exon
chr5:67744037-67744213
Coord A exon
chr5:67744214-67745779
Coord C2 exon
chr5:67745780-67745869
Length
1566 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTC
5' ss Score
6.8
3' ss Seq
TGATCCCATCACCCCTACAGGTC
3' ss Score
8.21
Exon sequences
Seq C1 exon
GACTCCGGCTTGCTGAGCGTCATCACAGACCCCATCCACACCCCAGTCACACTTTTCTGGCCCAGCGACCAAGCCCTCCAAGCCCTGCCCCGTGAACAACAGGATTTCCTGTTCAACCAAGACAACAAGGACAAGCTGAAGGAGTACTTAAAGTTCCACGTGATCCGAGATGCCAAG
Seq A exon
GTATTCTGTTTTCACACAGACGGGAATGGCAAGGTTGCCCTCGAGGTGATCAAATCCAGGAATTGTCTTTACCTCTCAGTCTCCATGGTGTTGGGAGGTCTGAGCATCCCCTGCCCCCACTGTGTCCTCCTCTGACTGGCTGTGGGGAACTGACCACAAGAGTATAGCTCATCTGGTTCTGTTTCTCCCCTGCCATTGTTTTATTTCCCCTAACTTTAACCAATACTCAAAAGCATCCTTCCCCTCTTCTACTGCAGACCAGCTCCCTCCCTTCCCTAGTTCACAAGGCAAAGTGTCTCAACAATTCCCAAGTTTCTCCCAGATGGACTCTTTCTCCCCCATTTCCAGAGTTTCTAGGCAAAGGATGGATTCATCCAGCTGTGACCAGTTGTTGGCTCGTGTACCAATCTACTGTGATTAGGGAAGCAGGATCTTGCAGAAACATGGCAGCTCTTGCTAAAACCCTGTCCCTCTGAATCCTCCTCCAGGACCCTGTTTCCTCCCAGGAGTGAGACATCTAATCCAAGAGGGCCTATTATCCTCACTTTGGTTAATTTGTAGGTCCTGTGTTAGTTTCCTAGGCTGCCATAACCAATGACCACAAACTGGGTGACCTAAAACAGTAGAAATAAATCCCCTCAGAGTTCTGGGGACTGGAAGTCTGAGATCAAGGTGTTGACAAGGTTGTTTCTGCTGGAACTCCTGAGGGAGAGGCTGTTCCCTGCTTTCTTCCTGGCTTCTGGTGGTGTCCAGACATTCTCGGCATCCCAGGCTTGTAGCTACATCCCTCCAGTCTCTGCTTCTGTTGTCACATGGCTGGCTGTCCTCTCCCTGTGTGTTTCTATGTCTTCACATGGCACTCTCCTCTTCTCTCTTCTTCTTAAGATGACACCAATATCTTTGGATTAAGGGCCCACTCACTTCCCTGGTGGCTCAGACATTAAAGAATCTGCCTGTAATGCAGGATATCCGGGTTCGATCTCTGGATCAGGAAGATGCCCTGGAGAAGGGAATGGCTACCCACTCCAGTATTCTTGCCTGGAGAATTCCAGGGGACATAGAAGCCCAGCAGTCCATGGGGCCACAGAGAGTCGGACATGACTGAGTGACTAACACTCTCACTACTCTCATGTGGCTTCATCTCAACCAATTACATCTGCAATGATCTCATTTCCAAGGAAGATGACATTTTGAGGTAATGGGGACCTAGACTTCAGTGAAACTTTTGAGGGGTCACAATTCAACCCATCGCAGTGCCCTAATGCAATTTCCCTAACCCTGGTCTGCCGCAGGCTTCATGCAGCAACACAGCACCTTCCATGGACTTCTGAACACAGAAGGGGAAGGAAGGGTGACTGAAACAGGCCGGAGGAGACTTTCCTACAGAAAAAAAGTCCAACTTCCTAGAGAATCCATACTTATTCTTCCTTTTGATTCTATCTGCTGTCATTTTGAAGCTGGAATTTAGAACTCAGAAAAAAAACTTGTATCTAAATTTGGTTTGTTAGCAAAGCTCCTTCTTCAACCCAAATTCAGGGTATTAATGTGATCCCATCACCCCTACAG
Seq C2 exon
GTCTTGGCAGTGGATCTCCCCAAATTTGCTCCCTGGAAGACCCTGCAGGGTTCTGAGCTGAGTGTGAAGTGTGGAGCTGGCAGTGACATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:51
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:
PF0246917=Fasciclin=FE(43.6=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(21.8=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:
TTGCTGAGCGTCATCACAGAC
R:
GATGTCACTGCCAGCTCCAC
Band lengths:
258-1824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]