BtaINT0141858 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67732156-67734192:+
Coord C1 exon
chr5:67732156-67732227
Coord A exon
chr5:67732228-67734072
Coord C2 exon
chr5:67734073-67734192
Length
1845 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
CTCCTTGGAAATTTTACCAGAAT
3' ss Score
3.81
Exon sequences
Seq C1 exon
GCTGTCTGTAACTGTTTGCCGAATTACACTGGAGATGGGAAAGTCTGCACCCTCATCAACGTCTGCTTGACC
Seq A exon
GTGAGTACCGCCCCCTCCCTGCATCTAGGGTATGGTGTTGAGGTGCCCTCCATCAGAGCTGCTTCTGGGCCATTCCTCATGTCCCAGTTGCAGAGTTGGAGACACTGCAGTCTCTGCCTCCGTCTTCATGTGACCTCACCTCTGTGTCTGGATCTCCTCTTCCAGTGAGGACACTAGCAGACTTAAGACCCCCTGATTAATCTAAGACATCGCATCTCCGAGATCCTTCATTGCATCTGCAAAGACTGTTTTTCTAAATAAGGTCCCATTCACAGAGATCAGGGCTTAGGATGTAGACATAGCTTTGGGGAGGACATAATTCAACCCACCCCAGAGCAGGAGGAGAAGGGGTCTCTGGCCCTGGTCACAGAACAAGCACATGGCAGAGTCAGAACTTGAACCCCTGTCTGTCTGACTCACAGGTCACACCCTTGGCCACTTCTCGTGCTTGTTCCTCCACGAGGCTCTGATCCCCAGCAGAGGCCCAGTTCATACACCTTCCCTCCTCATCCATATCTCTGCCCACCTGAGAGTCTCCTGCAAGCATGAAAACAGCACAGATACTCCATAATTAAAGCCCTTTCTCTCCAGACGAGGTCCCTACTGTCCCCCATGACGGTCTGTCTATTTTACACCAACTACCTTCTGGCTGGTGACTATTACTTTGCTATGATGGATTAGAGTTTAGCCTTTAGCTGAGAAGTGTCAAACAAGATTGATGCCTTCCTAGTTAACTGCCGGGTGCTGATAAACTTCCCATTTGGCAACTCTGGACTGATCTCTTCAGGGCTGGAGATCTGCTGGGATGGACTTGCCATCTTGAGATATGGGCACACCTCAGAGACATTGTGGCTTCGGTTCCACCACCAAAATACAGTGGCTATTACAATAAAGCAAGTCACAAGAATTTTTGGTGTCCCAATACATAAAAAGTTATATTTATACTATATTGAGATCTGTTAAGTATGCAATAACATTATGTCTAAAAAAATACAATGTATGTAAGCCAACCATACTTCAATTTTAAAAAGAAGACAGTAAGAGTTAAATAAATAAATAATGTATTGGGTTGCCCAGAAAGTTCATTAGGATTCACTTGTGACATCTTATGGAAAAGCCCAAACGAACTTTTTGGCAAACCCAATACATACCTTAATTAAAAAAATACTTCATTACTAAACATTGCTAACCATCATCCAACAACACAAAGTCATCACAAACTTCCAATCTGTAAAAATCACAGTACCTGCAAAGTTCAGTAAAATGAGGTATGCCTGTGTAAGGCTGGGTGAGTAGGATGACTCTTACAACTTTAGGGAGATGGAACACAAATTCAGGAAAAGAGCAAATAATGCAAACCAGTCAGTTCAGTTCAGTCACTCAGTTGTGTTCAACTCTTTGCGACTCCATGGACTGCAGCACGCCAGGCTTCCCTGTCCATCACCAACTCCCAGAGCTTACTCAGACTCATGTCTGTCGAGTTGGTGATGCCATCCAACCGTCTCATCCTCTGTTGTCCCCTTCTCCTGCCTTCAATCTTTCCCAGCATCAGGGTCTCTTTTCCAATGAGTCAGTTCTTCGCATCAGGTGGCCAAACTATTAGAGCTTCAGCATCAGTCCTCCCAATGAATATTCAGGACTGATTTCCCTTAGGATTGATTGGTTTGATCTCCTTGCTGTCCAAGGGACTCTCAAGAGTCTTCTCCAATACCACAGTTCAAAAGAAACCAGTCAGAGAGTAAGACAAAAAGTGAATGTCAATACAGAATTGCTTTGTGAGCATTGGCAGGGCTGGCAAGCTAACTGGTCTGATTCCTATCCCCCACTCCTTGGAAATTTTACCAG
Seq C2 exon
AATAATGGCGGCTGTAGTGAATTTGCTATCTGCAACCACACTGGACAAGACGAAAGGACTTGTACTTGCAAACCAGACTACGTTGGGGATGGGTTTACCTGCCGTGGCAACATCCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:44
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:
PF129472=EGF_3=PD(40.5=62.5),PF129472=EGF_3=PU(5.4=8.3)
A:
NA
C2:
PF129472=EGF_3=PD(89.2=82.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTCTGTAACTGTTTGCCG
R:
CTGATGGATGTTGCCACGGC
Band lengths:
192-2037
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]