BtaINT0047976 @ bosTau6
Intron Retention
Gene
ENSBTAG00000039014 | DEF8
Description
differentially expressed in FDCP 8 homolog [Source:RefSeq peptide;Acc:NP_001092427]
Coordinates
chr18:14784433-14784923:+
Coord C1 exon
chr18:14784433-14784560
Coord A exon
chr18:14784561-14784800
Coord C2 exon
chr18:14784801-14784923
Length
240 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGG
5' ss Score
8.17
3' ss Seq
TTTCCGCCCCTCTGGCCCAGGTG
3' ss Score
9.11
Exon sequences
Seq C1 exon
GGGGCGTGCCCAGCGAGGCCCGGCAGTGCGACTACACTGGCCAGTACTACTGCAGTCACTGCCACTGGAACGATCTGGCTGTCATCCCAGCGCGTGTGGTGCACAACTGGGACTTCGAGCCGCGCAAG
Seq A exon
GTGCGGAGAGAGAGAGCGGGGAGCGAGGGGTGCCGCCCTGGGGATTGGGTGGGGGCGTGGTGTGGCCGGGGGCGTGGCAGAGCGCTGGGGCATGGGGCGTGGCTGCGGGGGCGGGTCAGGGCACAGGCTGGTGCGGGGCCTCGGGGTGGGGCAGAGTGGGGCGGGGCCCGAGACAGGGCGGCGGTGCTGCAGGGGCGGGGCGGAGCGCAGAGGTGCCACCTTTCCGCCCCTCTGGCCCAG
Seq C2 exon
GTGTCCCGTGGCAGCATGCGCTACCTGGCGTTGATGATGTCGAGGCCAGTGCTCCGGCTCCGGGAGATCAATCCTCTGCTGTTCAACTATGTGGAGGAGCTGGTAGAGATCCGGGTAAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039014:ENSBTAT00000004669:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139011=DUF4206=PU(17.2=81.4)
A:
NA
C2:
PF139011=DUF4206=FE(19.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGCAGTGCGACTACAC
R:
CTTACCCGGATCTCTACCAGCT
Band lengths:
228-468
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development