BtaINT0005421 @ bosTau6
Intron Retention
Description
NA
Coordinates
chr1:121432088-121432969:-
Coord C1 exon
chr1:121432887-121432969
Coord A exon
chr1:121432406-121432886
Coord C2 exon
chr1:121432088-121432405
Length
481 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
ATCCATCCATTTCTCCACAGACA
3' ss Score
9.16
Exon sequences
Seq C1 exon
AATGGGAAATGCAACTTATATCCAATGACTTGGGAATTCAGCAGGATATTTTGCCAGAAAAAACATCAAATAGGGTACAAATG
Seq A exon
GTAAGATCAGTAAGTTTCATTCATAAAAAGTACTTATTTTCCTTTTAGTTAATATTGGGATTTCCATACAGCATGAACATTAGTGATAGATATTTGAGTGGCATTCACCCCAGATAGCAGTGTCTGTCAACAAATTCTGATTATGATCAACTTGGGAATATCCTAACCCAAGGTTCAAAATAGTTGCTGCAGACTTCCCACAAGGAATCATTCCCATGTATATAATTAGACAATGAACTTTGAGAACAATTCAATGAAATTGTAGTGAACTGTTTTATGATTACAGTATATGGCACCTCATTGTGTCAAAAGATTTCATCATTTAACTTTAAAGAAATCAACAGGGCAGGAAGTGTATGAATATAACGGAGATGGTAAAAATCATCATCCTCTCTGTAATGATGTTTCTGTTTTGAGATGGGTAGGATCAGTTAATGAATCTAAGAGATCTTTGAATCATCATCCATCCATTTCTCCACAG
Seq C2 exon
ACACAAAGCCACAATGGACAGGAACTGTATGACTGTGAGCACAGCTGGAAAGACTTCAGTGACAGTGACTACTTGTACCGTAGTACACAAAGGAGAACTGAAAATGGAGGCAATTCTCATGAATATAGTCATTATGGAAAAAGCTTCCTTATTCTGCACAATGAATCCTTTACTGGAGAAAAATGTTCCATGTTTAATCAGTGTGGAAAAGCCATCAGGCTGACTCCAAATACTGTGTACTGGCAATCCAGCATACAAGAGAAAGCCTTAGAACACAGAGATTGTGAGCAATCCTTTGCTAATGGGTCTTATATACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025146:ENSBTAT00000054299:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.104
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACTTGGGAATTCAGCAGGA
R:
ACAATCTCTGTGTTCTAAGGCT
Band lengths:
343-824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development