BtaINT0052084 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001857 | DOK4
Description
Bos taurus docking protein 4 (DOK4), mRNA. [Source:RefSeq mRNA;Acc:NM_001083786]
Coordinates
chr18:25551153-25551533:-
Coord C1 exon
chr18:25551426-25551533
Coord A exon
chr18:25551268-25551425
Coord C2 exon
chr18:25551153-25551267
Length
158 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGG
5' ss Score
6.06
3' ss Seq
CCCTGTGGATGCCATGCCAGGTG
3' ss Score
4.91
Exon sequences
Seq C1 exon
ATCTACCGGAGGTGCTGGCTGGTGTTCCGGAAGTCCTCCAGCAAGGGGCCTCAGCGGCTGGAGAAGTATCCAGACGAGAAGTCCGTGTGCCTCCGAGGCTGCCCCAAG
Seq A exon
GTTAGGGGGCCTGGGCCCTAGCTCCCCAACCTGTAAGCAGCGATGATTGTTATTCAGAGTCCTGAGGGCCAACAGGACCTCCTGGGGGTGAGAGAGCTGCGGGGGATGTAGCGGGAGGTGCTTCACCCTGGCTGAGTCCCCTGTGGATGCCATGCCAG
Seq C2 exon
GTGACAGAGATCAGCAATGTGAAGTGTGTCACACGGCTCCCCAAGGAGACCAAGAGGCAGGCAGTGGCCATCATATTCACTGACGACTCTGCACGGACCTTCACCTGCGACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001857:ENSBTAT00000057319:2
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:
PF0016924=PH=FE(33.7=100),PF065348=RGM_C=PU(34.2=75.0)
A:
NA
C2:
PF0016924=PH=FE(36.5=100),PF065348=RGM_C=FE(48.1=100)
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:
GAGGTGCTGGCTGGTGTTC
R:
CTGAGTCGCAGGTGAAGGTC
Band lengths:
215-373
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development