BtaINT0052087 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001857 | DOK4
Description
Bos taurus docking protein 4 (DOK4), mRNA. [Source:RefSeq mRNA;Acc:NM_001083786]
Coordinates
chr18:25549226-25550210:-
Coord C1 exon
chr18:25550021-25550210
Coord A exon
chr18:25549365-25550020
Coord C2 exon
chr18:25549226-25549364
Length
656 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGA
5' ss Score
8.18
3' ss Seq
CGTGCTCTCTGTGTCCCCAGGAT
3' ss Score
12.49
Exon sequences
Seq C1 exon
ATCGCTTCAATGTCTTCCTGCTGCCCTGTCCCAACCTGGACGTGTATGGCGAGTGCAAGCTGCAGATCACCCACGAGAACATCTACCTCTGGGACATACACAACCCCCGCGTGAAGCTCGTCTCGTGGCCCCTCTGCTCACTGCGCCGCTATGGCCGGGATGCCACCCGCTTCACCTTCGAGGCTGGCCG
Seq A exon
GTAGGACCCACTCGCCTCCCCACCCTCCAGCCATGGTCTTGATGGTGGCTGCCACTCACTTGTGTTGGGTGGGCCCTGTGCTGAAAGCTCATTTATCGGCATAGCATCCTGAAGGGGAACATAATATTCCCATTTTACAGATGAAGAAATCGAGGCTCCCAGCAAGTACGTCAAAAGCTCAAATCAGATGCTGGCACTGGCACTGACCAGCTGTGTGATGGCAGACCTGTGTCTCAGTTTTCTTATCTGTCATATGGGATAATAAAAGTACCTAGCCTCACACACTGGGTGATGATGGTGACTGGGTATATCTTGAACTCTGGAGGAGCCTGCCTAGACTCCAATTCTGTATACTCCACCATGTAACTTTGGTTGTTACTTAGCTTCTGAATGCCTCAGTTTTCTCATCTATAAGATAGTTTGAGAAAAACTGTAGTTATGAGCAAACTGATTGCACACAGACCAGGTGGTGGAGAAAACAGAATGGATTAATTCTCGTAAAGTATTTAGACCACCACGAGGCCCATGGAAAATGTTCAGCACGTTTGAGCTGGGTGGTCAGGCCCTCAGGTAACAGCCCTGCCTGTTCCCAAAGGAGAGCCTGAGCATGTCACATACGTGGGACGCGCCCACCACCGTGCTCTCTGTGTCCCCAG
Seq C2 exon
GATGTGTGACGCTGGAGAAGGGCTCTACACCTTCCAGACACAGGAAGGGGAACAGATTTACCAGCGGGTCCACAGTGCCACCCTGGCCATCGCCGAGCAGCACAAACGAGTCCTGCTGGAGATGGAGAAGAATGTGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001857:ENSBTAT00000057319:5
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:
PF0217412=IRS=FE(64.3=100)
A:
NA
C2:
PF0217412=IRS=PD(32.7=68.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGCTTCAATGTCTTCCTGCT
R:
TCACATTCTTCTCCATCTCCAGC
Band lengths:
326-982
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development