BtaINT0008996 @ bosTau6
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E1BHG5]
Coordinates
chr23:4175666-4176428:+
Coord C1 exon
chr23:4175666-4175720
Coord A exon
chr23:4175721-4176227
Coord C2 exon
chr23:4176228-4176428
Length
507 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
GGGGTTTCTTTGCTTTCAAGCCC
3' ss Score
4.75
Exon sequences
Seq C1 exon
GGGAGAGAATTTTCAGAACAGTTTATTCGACAAGTTTGCACTGATGTATTAAGAG
Seq A exon
GTAAGTCTCAAACATACAGATTTTAATAACTTTCAAATTTCAGAAGTAATATAAATATTTTTGTAGAAATTATAAAAGTGTAAGTAAGATAAAGAAGAAAATAAAGGACATTTATCCATCTTTGTCTCTCCTAGATAAGTATTTTTACCTTAAGTATTTTACAAACATTACATGGTAACGTTTGTAATCTTTTTCATAAAGTAATCTATTATTATTTCACCATTGATTAAATTTTATTTTCTGACGTAATTCTAGTAATTTTATTCCCCAATATGACACTTATAATTTAACAGTTTCTTTTAGGGAGGTACTTTCCCCCCTTATTTGAAGCAATTTCCATAATAAAATTATTGTAAACAGCAATGGATATTTCCTAGTTAAATTTCTAGAAATGAAGTTATTGGCCAAGAGTTAAGCATCTGTAAATCTTTTTTTAAAATTATAAGTGATATTATTAATGTCCATTCACCATTTAAACATAAGGGTGGGGGTTTCTTTGCTTTCAAG
Seq C2 exon
CCCAGTTACCTGTCTTACTTCAAAGTGGAAGAATTCAAAGCTGTGATCATTGCCAGCCCCAGCACGGCTCCCCTGGTATTCCAGGGCCACCTGGTCCCATGGGCCCAGAAGGTCCCCGAGGATTCCCTGGTTTGCCAGGAAGAGATGGTGTTCCCGGATTAATGGGAGCTCCAGGACGCCCAGGTGTCAAAGGATTAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046193:ENSBTAT00000036339:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.684 A=NA C2=0.985
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(8.6=26.3)
A:
NA
C2:
PF0139113=Collagen=PU(75.4=67.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGAGAATTTTCAGAACAGTTT
R:
TTTAATCCTTTGACACCTGGGCG
Band lengths:
254-761
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]