BtaINT0092104 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006187 | MFAP4
Description
Bos taurus microfibrillar-associated protein 4 (MFAP4), mRNA. [Source:RefSeq mRNA;Acc:NM_001080217]
Coordinates
chr19:34685617-34686051:+
Coord C1 exon
chr19:34685617-34685695
Coord A exon
chr19:34685696-34685896
Coord C2 exon
chr19:34685897-34686051
Length
201 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
CTTCTCCTCACCTGCCCCAGCTC
3' ss Score
5.62
Exon sequences
Seq C1 exon
GCTCTCCTGGTCCTGCCACTGCTGCTACTGCTCTCCGCTGGCCCCTGCGCTCCCCAGCTCCTGGGGATCCGGGGAGATG
Seq A exon
GTAAGCTGCCTCGGACCTGGCCCGCAGGCTGGGTGACAGACTGGGCGAGGGGCTGTCCCGGGCCCTCACAGCTGGGAGTGGGGCTGGCTGTTAAGATGGGGCGGGTGGGCTGCCAGTAGGCACCCCTGGCCTAGGGAAGGAAGCAAGCATGGGGTGCAGAGGTGTCCGTCGCCTCAGGCCCCTTCTCCTCACCTGCCCCAG
Seq C2 exon
CTCTGGAGAAGTCGTGCCTCCAGCTGCCCCTGGACTGTGACGACATCTACGCCCAGGGCTACCAGGCGGACGGCGTGTACCTCATCTACCCCTCAGGCCCCAGCGTGCCTGTGCCCGTCTTCTGCGACATGACCACGGAGGGCGGGAAGTGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006187:ENSBTAT00000008130:2
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:
NO
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(19.6=82.7)
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:
CTCTCCTGGTCCTGCCACTG
R:
GTCCACTTCCCGCCCTCC
Band lengths:
232-433
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development