BtaINT0005729 @ bosTau6
Intron Retention
Description
LOC526787 protein; Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:Q1LZH3]
Coordinates
chr19:56994857-56995304:-
Coord C1 exon
chr19:56995142-56995304
Coord A exon
chr19:56994920-56995141
Coord C2 exon
chr19:56994857-56994919
Length
222 bp
Sequences
Splice sites
5' ss Seq
AGGGTTAGT
5' ss Score
5.02
3' ss Seq
AAGTCCCCCATCTTCCCCAGGCA
3' ss Score
6.15
Exon sequences
Seq C1 exon
GAGTTGCCCAGGCTGAAGCACTTCCCTGCCTGCGTGGAGCCCCTGATGGGCACCAACTGCGAGGAGAAGCAGAGCTTCCTCCAGCTGCCAGAGACGTTGGCAGAGCTCCGGACCCGACTGGTGGACATGGGTCTCAGCTTCATCAACCAGCTCCTCCTGAAGG
Seq A exon
GTTAGTTAGAACCTGCTTGCCTGGGGCGACTGGAGACCCACCTGCCTTCTGGGGATGGGCTGCCCCAAGGGCAGCAGTTGGGAGTCCGCACACTTGTAAGAGAGCCCGGCCTGTCTGTGTGCACCTTCTCCAGGTGACTCAACCTCCTGGAAGCCCATGCCCCTCTCTGGAAGGACACTGGGCTGTGAAAGTGTCCTCAGCAAAGTCCCCCATCTTCCCCAG
Seq C2 exon
GCATTAAGATGAACTCCTATGAGGTGCTGCCCCCGGATGTGGACAGGAAAATACTTCTCAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000026645:ENSBTAT00000037969:6
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
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:
GAGTTGCCCAGGCTGAAGC
R:
AGAAGTATTTTCCTGTCCACATCCG
Band lengths:
221-443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development