BtaINT0000917 @ bosTau6
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MPL6]
Coordinates
chr23:28333419-28334072:-
Coord C1 exon
chr23:28334000-28334072
Coord A exon
chr23:28333689-28333999
Coord C2 exon
chr23:28333419-28333688
Length
311 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TCACCCCTCCCCGCCCCCAGCCT
3' ss Score
8.2
Exon sequences
Seq C1 exon
ATGCGAGTCATGGGGCCGCGAACCCTCCTCCAGCTGCTCTCGGGGATCCTGGTCCTGATCGAGACCCTGGCTG
Seq A exon
GTGAGTGCGGGGTCGGGAGGGAACGGCCTCTGCGGGGAGGGGCGAGGGGACCGCCCGGGAGTCTAGGGCACTACCCCAGGGAACGAGCAACCCCGACGCCCCTACCCAGACCCGCCCCCTCCCCGGGTCCCGTCCTGTCCCTCCCTTGCATCCCGACCTTCTTTTCTACCCCTTTCAAAGTTCGGACAGGTTTTCGACCGCTTCCATCTCGCTGGCCCTACGCCCCCTCCTCCCTCCCGGGTCCGTCACCTCGGACCCGGGACCCGCGCCGGGAGGAGGTCCGGCCCGGTCTCACCCCTCCCCGCCCCCAG
Seq C2 exon
CCTTCCACTCCCTGAGGTATTTCTACACCGCCGTGTCCCGGCCCGGCCTCGGGGAGCCCCGCTTCATCATCGTCGGCTACGTGGACGACACGGAGTTCGTGCGGTTCGACAGCGACGCCCCGGATCCGAGGATGGAGCCGCGGGCGCGGTGGGTGGAGCAGGAGGGGCCCGAGTATTGGGATCAGGAGACGCGAAAGGCCAAGGACGCCGCACAGACTTTCCGGGCGAACCTGAACAGCCTGCGCGGCTACTACAACCAGAGCGAGGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005146:ENSBTAT00000025832:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.154
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(50.6=98.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCGAGTCATGGGGCCG
R:
GGCCTCGCTCTGGTTGTAGTA
Band lengths:
342-653
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]