BtaINT0000243 @ bosTau6
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MK50]
Coordinates
chr11:103251567-103252263:+
Coord C1 exon
chr11:103251567-103251683
Coord A exon
chr11:103251684-103252129
Coord C2 exon
chr11:103252130-103252263
Length
446 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CACGGCCCCTCCTTGCTCAGATC
3' ss Score
8.78
Exon sequences
Seq C1 exon
GGCAGCTGGGAGCCCAAAGCCCCAGAGATGAAAGCCCTGCTCCTGCCCATCGCCCTCAGCCTGCTCGCCGCCCTGAGGGCCCAGGAGCCCCCGTCCTGCCCTCTGGAGCCCCAGCAG
Seq A exon
GTGAGCCTGGTGGAGGGGAAGGCTGTGACCCATGGGGGCCGCGGACCAGGCCCGTCTCAGGAGGAGGGCTCTGGCCCCAGGCTCCCCGCAGGAAGGGGTCGGGGAGCAGGGGGCTCTCTGTTTGCCTCTCAATCAGGCCCCTGCTGGTCCCAGGGCTGCCCGGGGAGCAGCTCCAGCTCAGGGCCCAGAGAAGTGACTCCTGGGACCCCCATGGCATGGCTGCACCCTCCACAGAGAAGACGCATTGGGGGCGGAGCCTGCTCCCTGAAGAAGATGGGCGTCCTGCCTCTGTCTAGCACCGGGAGCCCCGCACGCCGGGTTGTTCTGACCAACACCCGGGGTGTAGACGTGCTGGAGCGCAGCCTGCACTGGGGGAGGCAGGTGGTGGGTGCGGACGCGAACCTGGCCTGCCCCACGCTGGAGGCTCACGGCCCCTCCTTGCTCAG
Seq C2 exon
ATCGCAGGAACTTGGTATGTGAAGGCCATGGTGACCGACGAGAACCTGCCTAAGGAGATGAGGCCCAGGAAGGTGTCCCCCGTGACGGTGACGGCCTTGGGCGGCGGGGACCTGGAACTCACGTTCACCTTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000893:ENSBTAT00000032610:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.267
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006118=Lipocalin=PU(30.9=95.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
CAGCTGGGAGCCCAAAGC
R:
ACGTGAGTTCCAGGTCCCC
Band lengths:
239-685
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development