BtaINT0047975 @ bosTau6
Intron Retention
Gene
ENSBTAG00000039014 | DEF8
Description
differentially expressed in FDCP 8 homolog [Source:RefSeq peptide;Acc:NP_001092427]
Coordinates
chr18:14783776-14784560:+
Coord C1 exon
chr18:14783776-14783940
Coord A exon
chr18:14783941-14784432
Coord C2 exon
chr18:14784433-14784560
Length
492 bp
Sequences
Splice sites
5' ss Seq
TGCGTGAGT
5' ss Score
7.55
3' ss Seq
TTGGAACATCTCCTCCACAGGGG
3' ss Score
6.46
Exon sequences
Seq C1 exon
GGTGTTATTACCGCTGTCACAGCAAGTGTTTGAACCTCATCTCCAAGCCCTGTGTGCGGTCCAAAGTCAGCCACCAGGCCGAGTATGAGCTGAACATCTGCCCTGAGGCAGGCTTGGACAGCCAGGATTACCGCTGTGCGGAGTGCCGAGCACCCATCTCTCTGC
Seq A exon
GTGAGTGCCCCCGGGGTGGGGGGTGGGAGTTGGGCAGGGCGCAGGGCTGAGGGGAGCTGTCCTGGGCAGGGTGCCCTGCCATCAGCTGCGTGAGTAAATGGGAGGAATGCGCAGTTGAGCTCCTCTCCTTGGGAAGCCAAAAAGGACTGCTTTTGGCACCTTTTCACGCCCGCCCAACCTGACCAAGGTTCCCCTAGGAGTCCCTGCAGGGCTGGGCTAGTCTCTCTCCTGTGACCGCATCATCACAGAAAACCCACCCCATGGGAAGACCACACTGCACTCACACGCTGTGTGTCAGGCCTTCCTAGAAACATACTGACATTGACTCAAGGGATTCCCCATCTACTGTCTCGTTTTACTGATGAGAAACGGGAAGCGGGGCGACTTAGAAGAGGACGAGTCAGGGGCGGGGCCGGGCGGTGGGGAACCCTTGGTGCAGCTGGGGGAGGCGACCTCTCAGGTCTTCCTGACTTTGGAACATCTCCTCCACAG
Seq C2 exon
GGGGCGTGCCCAGCGAGGCCCGGCAGTGCGACTACACTGGCCAGTACTACTGCAGTCACTGCCACTGGAACGATCTGGCTGTCATCCCAGCGCGTGTGGTGCACAACTGGGACTTCGAGCCGCGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039014:ENSBTAT00000004669:6
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:
PF0013017=C1_1=PD(37.0=35.7)
A:
NA
C2:
PF139011=DUF4206=PU(17.2=81.4)
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:
GGTGTTATTACCGCTGTCACAG
R:
GGCTCGAAGTCCCAGTTGTG
Band lengths:
286-778
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development