BtaINT0141874 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67761704-67763119:+
Coord C1 exon
chr5:67761704-67761897
Coord A exon
chr5:67761898-67762977
Coord C2 exon
chr5:67762978-67763119
Length
1080 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CTTTCCTGTTCTCCCCCTAGGGC
3' ss Score
14.62
Exon sequences
Seq C1 exon
TTGTGGATTTCTGCAAACAGAACAACGGCGGGTGTGCAAAGGTCGCCAAGTGCTCCCAGAAGGGCACGAAGGTCTCCTGCAGCTGTCAGAAGGGCTACCAGGGGGATGGCCACAGCTGCACGGCGATTGACCCCTGTGCAGACGGCCTCAATGGCAGGTGTCACGAGCATGCCACCTGCAAGATGACTGGCCCG
Seq A exon
GTGAGTCTCTGTCCCAGGGAAATGGGGGGTGGGGTACCACCTGTGCCTCCCTCAGCCTGGCTTCTCCACTCAGGTCACCACTGGCCTCTTCCTAAGCCTTCTTCCCACCCAAGTCTATTTCTCTATTTCTTGATAAGTCAACAAGCTAAATACAACATGGAACCTGATGCAGGAAAAGGACCTTCCTGGAAAAACTGGTTAGGTCCACTTAAAGTCTATTGTTTAGTTAATAGTAACACATCAACACTAGTTTTTTAATTTTGACAATGAACTGTAATTAGGTAAGATGTTAACATTAGGAAAGACTGGGTGGAGAGTATAAGGGAACTACTCTCTGCATCTTTTTTTTTTTAATTTTTTTTTTTTGCGTCTTTTCTATAAATCTAAAATTATTCAAAATACAAATCAAAAAAGTAAGAAGTGGCAGGAAAAGTGCACTCACACCTTTTTAGAGTGCAGTCAGTGCCCTGTTGCCCCTTTCTCTGATGGGAAGGGAAGACGGTGGGAGATGATGTCCATTAGGGCTACAAATGTGAACTCAACAGTCAGGCAGCCTCTGAGTCTTGGCTCCTGGCCTGATATGCTGTGCAGTCTGGGGCTGGCTGCTTAACCTCTCTGAGCCTCAGTTTCCTTAGCCACAAATTATGAGCCTTATAATAATGCAGACCTCACAGGATCGTTCATGGGGATTAAAGGACATCATTCATTGGCTCAACAAATGGTCATCAAGCACCTACTGTGTGCTGTTGTAGCTGTCAGGGATGTAGCGATCAAAAGTTTATACGTGATAGAAGGAAGAGGCATGCTCAGTTCTGAAATCAGTCCAGTGTGATAAAAGGGATCAGGAGACAGGGAGGGTCTCTCTGAGGAAGTGACAACTGAGCTGAGATGTAAAGGAGGACACTCCATCCTGAGTCTGGACAAAAGCAAGACAGAGCAGTAACTCAACTCCCACTGGCCAGGAGGGGCATGTTGCTCATCCTTCTGAGCATCTCCTATGCTGGATGGTAGCCCGTGGAGCACATGGGATTCTGGGGGCCCAGAGAAAAGGCTCTTTCATCTTTCCTGTTCTCCCCCTAG
Seq C2 exon
GGCAAGCACAAATGTGAATGTAAAAGTCATTATGTGGGAGACGGGCTGGACTGTGAGCCAGAGCAGCTACCCATCGACCGCTGCCTGCAGGACAACGGGCAGTGCCATGCCAATGCCGACTGTGCCGACCTCCACTTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:59
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=WD(100=55.4),PF129472=EGF_3=PU(50.0=29.2)
A:
NA
C2:
PF129472=EGF_3=PD(44.7=35.4)
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:
AAACAGAACAACGGCGGGTG
R:
GAAGTGGAGGTCGGCACAGTC
Band lengths:
318-1398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]