BtaINT0141851 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67717933-67719713:+
Coord C1 exon
chr5:67717933-67718128
Coord A exon
chr5:67718129-67719617
Coord C2 exon
chr5:67719618-67719713
Length
1489 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGT
5' ss Score
9.49
3' ss Seq
ATGGCTGTGTTTCCACTTAGTGT
3' ss Score
7.2
Exon sequences
Seq C1 exon
ACAAGAGAATGCTGCGCGGGCTACTTTGGCCCCCAGTGCCAGCCTTGCCCAGGGAAACCTGAGAACGTCTGCTTCGGAAATGGGATCTGCTTGGACGGAGTCAATGGCACAGGCGTGTGTGAGTGTGGGCGGGGCTTCAGCGGGACGGCCTGTGAGACCTGCGCTGAGGGCAAGTACGGCATCCACTGCGACCAAG
Seq A exon
GTGCGTACCCCACCACCCCCAGCGGGCTCCCCAAACCAACCGGAAGTGCAGGAGGAAAGAGTCTAAATACGTGCTCCCTAACCAGCTGGTGTCCAGGGCAGGCTGGAATCCACACCCCACCACCTCGCCCCCGCCGCCATTATCATGTAAATTACAAGAACTTCCGTGTTGTGTAATTTGCACTGGCAGAAACTCCAAACATTTTCTGTACTGACTAACCTGCATCTACCAGCCCACTCCAGTCTGCTCATTGACATTGTCCAACCCACCCATGTTTCTGTATTAGTCTGTGGGCCCTGGTCTCTGTGGTTACACTCAGTTTTGGACATTGTGTGATTGTTTGAAAATCAACTCTGTGCACATTATCTCATTTAATCCACACGGAAACCATATATACTGGAGTGTTCATGCCCCCTTTTTACAAATGAAGACTTAAGGCAAAGAGGTTGAATGACTTCCCCCAACGTCACACCTGGTGAGATTTGAATGCACACCCTGCTGCCCTCCAAAGCCTTGTTCTTGAATCAGGCCCTTTATGTGATGGTCACTCTATTGATCCACACAGCCAGCCACATGCTTTATGTTGTTTTTACGAAAATTGTGATCTGTTTTAGCTAAGTCACCTGCAGTCTCTCACCCTGACTTTCTTGTGGCCAGGGGCACACACTTATGAGGGGGCTGACAGGAAAGAAGGGATTTTCTAATCCATGATGGGAAAACAAAGCATTTTTTCTACCTTCTATTGAGAGTCATGCGTGTGACCTGGCTATCACTGTTTTCTCATCAGCCAGCCCAAGCCAGACAAAATCAATATATAATTGAATCATTATAATTGGGCTGTATAATATGTAATTGGCATTACTGTGCTGATTTTTTCTGTGTTATATGGGAGAATTATATACTTGCATTTATGCAGGATTTCCTAACCTAGGATCCACAGATGATCCTCACAGGGCCCAGCAAACCCCCAAGGCTGAATGCTTTTTTCTGAGAAAGGCATCCTTAGCTTTCTTCCAGTTCCTAAAGACACTCACCACACTGCTGCATAACAAAGGAATCTGCATTTCTGTGTAGTCAATGAAGGCAGTGCCTCGCCAGGTTTATAGGATCCTAGCAGACTTCTCTCTGAAACCTACTCCTAGGGAATAAACATGGTTCCATCCCAAGGGATCCCACATAACCTTGGCTCCTCTGATAACCTGAGCCAAGGACGCTCTCACACTGCTTGGGTCACTGCCCCGCAGTGCTACACAGTCCCCAAAGGGTGGTCTTTGTTGAAGCACAACCTGTTTCACCATTTAGCACACTCCTATGCCCCCTGCCCTTCCTGGGAATCCAATCCCTTCCCGCACCCACCCATTAGTGACACTAATTATCTGGAAGTGGACTGGAGAATTCAAATGCAGAAGTGAACCTTTGTAGTAAATCAAAAGTGAGTTATTGAACACAGGTCAAAAACCTGACAATGCATGGCTGTGTTTCCACTTAG
Seq C2 exon
TGTGTACTTGTGTCCATGGGAGATGCAATCAAGGACTCTTGGGTGATGGTTCCTGCGACTGTGACGTGGGCTGGCGAGGAGTGAAATGTGACAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:38
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:
PF0000822=EGF=WD(100=47.0)
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:
ACAAGAGAATGCTGCGCGG
R:
GTCACATTTCACTCCTCGCCA
Band lengths:
288-1777
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]