BtaINT0005419 @ bosTau6
Intron Retention
Description
NA
Coordinates
chr1:121433799-121434650:-
Coord C1 exon
chr1:121434524-121434650
Coord A exon
chr1:121433880-121434523
Coord C2 exon
chr1:121433799-121433879
Length
644 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
ATATCTTTCCTCATGAACAGGAT
3' ss Score
9.04
Exon sequences
Seq C1 exon
GACTCAGTGACCTTCACTGATGTGGCTGTGTACTTCAACCAGGAAGAGTGGACTTTACTGAATCCCTTTCAAAGAAAGCTATATAGAAATGTGATGCTGGAAAACTACAAGAACCTGACCACAGCAG
Seq A exon
GTAAGGCTGCCATCATTCCATTACACTCTTAGAGAATGGACATATATGTGCTGTACCTTCTATGTTCCAAGATGGGTGATGCCAACCTGAACACAATGGAAACTACTAGACACTCGTATCTAAGGAACGAGTTTTACTCCAGTATACTTTCTGTAACAACGTGCTTTGAGAACTAACAGCATTATCATGACTCTTGTTTGAAATATGCATTCTCAAGAGTTCACCTTTGGCATAGTGTCAAACTTAGAAATTTGGGCCCAGTTATCTGTTTTAACAGGCAGTGGGCATGATTCTTGAAACTAGCATTTGGCAACCACTAGTTTAGCAGCTTCTCCATGAGACCAAACATCTCTTTTACATTTACTTCATTTCCCATTTAACAACATTCTCAGTGCTTTGTAAATGTTCACATAGGTTTGAATATGTTTTTCACTGACCACAGATACAATCTCTTTGACACACAGAAAGAGGAGCTATTTGCCTTTTTCTCTCTTTAAAAATTATTACCACACAACAACAACAACAAAAAGAAATTATTACCACATTCATTCTAATGACTTGATTAGATACAGGACCTGATTCATGGGAAGGTTCGTCATGCTTGGCAGGGACTTTTTCATTAGTATATCTTTCCTCATGAACAG
Seq C2 exon
GATATCAAGCAATCAAACCCACTTTAATCTCTTGGTTGGAACAAGACGTATTAAAAACTGTGGAGAGAGGAATCCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025146:ENSBTAT00000054299:2
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:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACCTTCACTGATGTGGCT
R:
GAGGATTCCTCTCTCCACAGT
Band lengths:
198-842
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development