BtaINT0141885 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67649590-67651180:+
Coord C1 exon
chr5:67649590-67649715
Coord A exon
chr5:67649716-67650983
Coord C2 exon
chr5:67650984-67651180
Length
1268 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
TTTGGTCATTGCTTCTCCAGCCA
3' ss Score
6.13
Exon sequences
Seq C1 exon
CCATCCTGGAATGTGCAGCCTTGCTCTGCCCAGAAAATTCCAGATGCTCACCTTCCAGCAAAGATGAAATCAAACTAGAATGCAAATGCCTTCCCAATTACAAAGGCGATGGCAAACACTGCGAGC
Seq A exon
GTGAGTAGAACCTCCATCCTGCAGGTTTATTCATTAAGATGGTTAGATTCCTCATCAGAAAAATGCCTCACAGCCTTCTTAATATTAACACAATGAACACTTCTATTTTTCTCGGTGCAGTTGAATGATATATATTAAAAATTCTAGGCAAAATGCTCATCATGTGGTAGCTCTTCAATAAATGATCATTTCTCCTGTTATCAAAGTGTATCTATAGATTTTTAGGGCTTCCCTAGTGGCTCAGACAGTAAATAATCTGCCTGCAATGCAGGATACCCAGGTTTGATCCCTTAAATATATATGTTTTTGCTTTATATTACCTGAATCAGTGTTAGGATAGGATGTACTTTGTTTGCTTCTTCCTTTCTCCCTTCTTTCCATGCTCTTTCACTTCATGAGAGGTTATAATCGGTTCTGAACATGCTATTGGAACCAGGCCATCTGTGTATACATCCCAGATCTGCCTGTTAACTGACAACATGACCTTGGACGAATTCTTGAATCTGCCTGTGCCTCCATTTTCCTGTCTATGAAATGGGCATAATAGTGGTAACTACCCTAGAGGATTGTAAGGCTTAATTGAGTTCATATATGTCAAATGCTTAGAAAAGGGCCAGTACATATTACAAATTCTATAAATGTTAGTGCTTTCTTTCATGCCACTTTATATTTAAATCCACACATAGCATGGCATAATAATACATCATCACAGTACTGGTAGTTATCTGAGGTCACTCAGTCGTGTCCAGCTCTTTGCGACCCCGTGGACTATAGCCTACCAGGAGGCTCTGAGGAGCCTCTCAGTCCATGGAATTTTCCAGGCAAGAGTACTGGAGTGGGTTGCCATTTCCTTCTCCATCATTCCTGCAAGGCATATATAAATCAATTTGGTAGGTGGAGGTGATCCAGAAGGTAAGATGAAATGTTTTTTACTCTCTCTTGAAACTGTTAGGTTGCCTGTGCAGCTTCCCTGGTGGCTCAGACGGTAGAGAGTCCACCTGCAATGCGGGAGACCTGGATTCGATCCCTGGGTTGGGAAGATACCCTGGAGAAGGGAATGGCTACACACTCCTGTATTCTTGCCTGGAGAATATAATGGACAGAGGAGCCTGGTGGGCTACAGAGTCCATGGTGTCGCAAAGAATCGGACACAACTGAGCGCCTTTCACTTTTCACTTGGTTGATTTCCCCTCTCCCTCCCTCACAGTTGATTTCCCCTCTCCCTCCCTGCATGTGGTAACCACCTTATTTGGTCATTGCTTCTCCAG
Seq C2 exon
CCATCAATCCGTGTTCACAAAATATCTGCCACCCTCATGCTCGGTGCACCTACCTGGGACCAAATCAGCACAGGTGCACGTGTCAAGAAGGCTACCGTGGGGATGGCCAGGTGTGCCTCCCGGTGGACCCCTGCCAGGTTAACTTCGGAAACTGCCCAACAGAGTCCACGGTATGCAGATACAGCGGGCCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:7
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:
PF129462=EGF_MSP1_1=WD(100=90.7)
A:
NA
C2:
PF129472=EGF_3=WD(100=53.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCTGGAATGTGCAGCCTTG
R:
TCCAGGCCCGCTGTATCTG
Band lengths:
318-1586
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]