BtaINT0061826 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048155 | FCN2
Description
Bos taurus ficolin (collagen/fibrinogen domain containing) 1 (FCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001010996]
Coordinates
chr11:106826832-106827341:+
Coord C1 exon
chr11:106826832-106826894
Coord A exon
chr11:106826895-106827305
Coord C2 exon
chr11:106827306-106827341
Length
411 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
CATCCCCTGTCTCTCCCCAGGAG
3' ss Score
12.87
Exon sequences
Seq C1 exon
GAGAACGAGGTTTGCCCGGAGTCCCTGGGAAGGCAGGGCCGGCTGGACCCAAAGGAAGCACAG
Seq A exon
GTGATGAAGAGCTGCAACCCCCCAGCAGGACCCTGGGGCCTGTCTACAGAGCCGGAGAGTCAGACCAAGAGGGGCGGGGAGGTGGAGAGAGGGGGGAGAGACAGAGCGGGAGGGCGGCGTGAGAGACACGGCCTGTCTTACCGCCCGCGTCCTGAGAGCCTCGAGGCGGCGCGTGAACAGGCCCAGGGTCCTGGGTCCCCAGCAGCCTGCTGTGACCCAGGGAAGGATCCCAGGCCTCACGTTCCCAGCCGCCCACCCGCTCCACCAAGACCCAGGCATCTGAAAGCCGTGTGAGCGTGGAGCATGCGTGAGGCTGAGCCACCCCCCGAAGAACTGAGCCTGGGGTGGCTTCCAGAGCGGAGGGTCGCTGTCCACTGACAGGCGTCCTCTGCATCCCCTGTCTCTCCCCAG
Seq C2 exon
GAGCCCAAGGGGAGAAGGGTGCACGTGGAGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048155:ENSBTAT00000065623:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(36.2=100)
A:
NA
C2:
PF0139113=Collagen=FE(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development