BtaINT0141871 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67754666-67756814:+
Coord C1 exon
chr5:67754666-67754815
Coord A exon
chr5:67754816-67756709
Coord C2 exon
chr5:67756710-67756814
Length
1894 bp
Sequences
Splice sites
5' ss Seq
AGCGTACGT
5' ss Score
7.8
3' ss Seq
CATTCCAACTTGCTCTACAGCTT
3' ss Score
7.29
Exon sequences
Seq C1 exon
CCTGCCCTGGAGGCCCAGATACCCCATGTAATAACCGGGGTATCTGCCTGGATCCGTACTCACCCAGCAGACAGTGTCAATGCAACAGCGGCTTCAACGGGACAACATGTGAGCTGTGCTGGCCGGGGAGATTCGGGCCTGACTGCCAGC
Seq A exon
GTACGTGGCATCCCCTCCACTGAGTTTTCGCCTGTCATCAGCTGGGCGTGCATCCTTGCCTGATGCGTACCATCCACCTGGGCTAGAAGCATCCGTCCTCTTTTTTCCCAGCCTCCCATTTGCCTGCTCTTTTTTCCTCCTCGGATATTTTCCCAATTTCCATCCACCAATTGAAATTCACATCCCCAGGAGCCACCCAGGCAAGCTGTAGCCAACCAATGCTCATTCAGTCATTTGACTACCATGTATATGCTGAGTCTTTACTAATATCAATAGCTCACGTGTATGAAGTGCCTGCCATGTGCCCGGCAGGTATGTAGTAGCATCTTATCCTCACAACAAGCCTTCGAAGTGGGAGCTATTATTATCTCTCCTTACAGATGGATAAGGTGAGGCACAAAGAGCCTAAGTGACTTGATCAAAAGCCAGGAATAGTTCTAAATTGTAGGGGTACAGGGTATGAGAAGGGGATAGAATCTCAGCTTTCAAGGAGTTACACTCAAAGGGAAGAAATAAAAATAACAGAAACAAAAATAGACATAAAGGTACAAAGAGAAAAAGGCAGGTGAAGGAGATCAAGAAAGAAAGGAAATACAACTCCAGAAAACATCTCACAAAATATTTGAGTAGAGACCTAGCCGAGATGAGGACTTCGGTGGCTCAGACGGTAAAGTGTCTGTCTACAATGCGGGAGACCCGGGTTCGATCCCTGGGTCGGGAAGATCCGCTGGAGAAGGAAATGGCAATCCACTCCAGTACTATTGCCTGGAAAATCCCATGGACAGAGGAGCCTGGTAGGCTACAGTCCGTGGGGTCGCAAAGAGTCGGACACGACTGAGCGACTTCACTTTCACTTTCGCTTTCTAGCAGAGATGAAGGGGCCAGGTGTGGGGATATCCATAATAGCTCTATCCAGTCAAATTTCAGTGATGCTGGAAATGCTGCCTAACTCTGCCATGAGGAAGCCACTAGCCATGTGTGGATATGGAACACACAGAGTCTGTGACTGAGGGGCTGATTTTTGTTAATTTTAATTAGTTTATATTTAAATAGCCATGTATGATGACTGGCTGCTCTGTGGGACAGTGCAGACTAAAGGAATGACTTTGTGGGAAGAGAGGCAAGTGCAAAGGCCCTGAGGTAGGACAATGTTCAGCATGCAAGGCCCAGCCAAGCGGCCGAGGTAGCTGAGCAGAGTGGGCAAAGAAGAGAGAGGGAACACAGAGGTGGGCTCAGAAGGTCGCCAGGGGCCAGATAATATGGGGGCTGCTTGGCCAGAGACAGATCTTCAGCATCTCATCTAAGTGCGGTGGCGGCCAGTGAAGGATTGTGAAAGGGCCACCCCAGCTGCCCTGTGCAGAGAGTACCATGGGAAAGCAGGAGCAAAAGAAGGGCCGGCTTTGGGGACGCTAATGCCCCAATCCAGGTGAGAGATGGCAGTGCCTTGGGCTAAGGTGTTGGTGCTGGAGGTGGTCAGAAGCAGAAGGAATGTTTCTTGAAGCTTTGACTTTTAAATGGATTTCTGTTAGGAGGCCCAGATAAGGTTCCCTTCCCTTTCTGTTCTATTTCATACCCCATGACACCCTCTACTTCTGTAATTTACAACACTCAGCATATTTATCATTACATGTTCAATAGCCCATTACCCCTAGACTGTAAGCTCCCTGAGAATAGGGACCTTATGTCTTATGTTTTCCACTGTAACCTCATTGCCTGGTAGCCTGTGCCTCATGGTAGCCACTAAGTTTATTTTTTGTAAGTTTGAATGAATGAATGTGAATAAGCACGGGGCCTCCCACACTGACCACACAGCCAGCACATGGCCAGTGAGCTGGCAGATTGGACTTCAATCCCAGATCCCTGCTGACTGACCACATTCCAACTTGCTCTACAG
Seq C2 exon
CTTGTGGCTGCTCAGACCATGGACAGTGCGATGACGGGATCACAGGCTCTGGAGAGTGCATCTGCGAGACAGGGTGGACGGGCCGCTTCTGCGACACCCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:56
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:
PF079748=EGF_2=WD(100=70.6)
A:
NA
C2:
NO
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:
GAGGCCCAGATACCCCATGTA
R:
CCCGTCCACCCTGTCTCG
Band lengths:
223-2117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]