BtaINT0141880 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67774489-67775523:+
Coord C1 exon
chr5:67774489-67774608
Coord A exon
chr5:67774609-67775382
Coord C2 exon
chr5:67775383-67775523
Length
774 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TGTCTCTCCTCTCCTCTTAGACC
3' ss Score
10.85
Exon sequences
Seq C1 exon
GAAGTGCTGGTGTATTCCAACAGCTCAGCCAGAGGCCGGGCATTCCTGAAACACCTGACTGACCTGTCAATCCGAAGCACCCTCTTTGTGCCCCAGAACGGTGGGCTCGGGGAAAACGAG
Seq A exon
GTGAGCTGGGTTCCTGGTATCTGCGTTTAGTGCTTCTAGGCAGTATCAGTTATCACCTCAACGATGCAGTGTCACAAATGACCCCACAGTGCAGTAGCTACATTTATGTGGCTCACACAGCTGCAGATCAACTGGCAGTTCTGGGCTTGGCCAGGCATGCTTGCGTGTCTGAGCTGGGCTGGCCATCAGCCGATCTAGCCTGGCCTGTCTGGGACTCTGCTCCACAGGGCTCTCAGGCTTCAGCAGGTTATCTCAGGCATGTTCTTCTGGCAGAAAATGCCAGCACTTTCTAAGACCCTGTCTGGTCTCATTTGCTAACATACCACACACCCAAAAAGTCACGTAGCTGAACCCAAAGCCAGAGTGGGAGGCCCTCAGAGTTATAGGGCAAAGGGCAAGGATACAGGGAGAGGTGAAGAACTGGGGCCAGGGATGCAACTGATCTACCACACCAACCTCCTTCGTGTCATGGCACACAGAGGAGCTGGCAGCGTTTATTAAGTCTGCCCACAGGCTCCGACAGCCTCGAGCCCTTATCCCACTGAGGGCTGAGAAAAGCAATACCTCTGCTCACTTGTTACCCACTCGAGACCCACTCCTCTCAGGACATCACTGGGAAGCTTTGCTTAGACCATTAAAATGACTTCCAAGTAGAGGCAGAAAAGTCAAGGCCTTGAGAAGTGATTTTTTTTTTCTGTGTCATCCTTATCACGAAAATGAAAAAATATTGCTTGACTTTTAAAGACCATTCTTATGTCTCTCCTCTCCTCTTAG
Seq C2 exon
ACCCTGTCTGGGCGGGACATAGAGCACCACCTCTCCAACATCAACATCTTTTTTTACAATGACCTTGTCAATGGTACCATCGTGCACACGAGGCTGGGAAGCCAGCTGCTCATCACCTCCAGCCAGGACCAGCGCCAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:64
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=PU(32.2=95.0)
A:
NA
C2:
PF0246917=Fasciclin=FE(39.0=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:
TGGTGTATTCCAACAGCTCAGC
R:
CAGTTGGCGCTGGTCCTG
Band lengths:
254-1028
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]