BtaINT0061830 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048155 | FCN2
Description
Bos taurus ficolin (collagen/fibrinogen domain containing) 1 (FCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001010996]
Coordinates
chr11:106828695-106829417:+
Coord C1 exon
chr11:106828695-106828822
Coord A exon
chr11:106828823-106829287
Coord C2 exon
chr11:106829288-106829417
Length
465 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGC
5' ss Score
4.78
3' ss Seq
GCACCCCCCTCCACGCACAGGTT
3' ss Score
7.13
Exon sequences
Seq C1 exon
GACCTCGGACCTGCACGGAGCTGCTCACCAGGGGACACTTTCTGAGCGGCTGGCACACCATCTACCTGCCCGACTGCCGGCCCCTGACTGTGCTGTGTGACATGGACACCGACGGCGGGGGGTGGACC
Seq A exon
GTGAGCTGCCGGGGTCCCAGAGACGGCGGCGCGGCCCGTGGGCAGTGGTGGGCGTGTCCAGGAGGCTCCTTTGGTGGGAGACCAGTCTTTAGAGGCCTCTGTGAGACTGTCTAACCCCAGGCTCAGCTGACCCCGTCCTGTCACTGAGGTCGGGAGAAGCAGAAATGTCGGGGCAGGGGCAAGGAGGCCTGTAACCCCAGGCCATGGGCTGAGGCCCAGAAGTGCCCACTCCTCTCCAGACACGTGGCTTTGGGCTTATCGCCTGCACTCTCTGAGTCTCCATGATCTCCCTGGCCACATGTAGGTACTCCCCTGACGGTCCCCGGGGTCTCTAATGAGACCCACATCCGGGGCCCCAGCCTGTGGAGCGCTGTGAGCTACTGGTGCTGTGCTCACGGGTGGCGGGGCGCCCCACAGGGGGACGGCAGCAGGGGCCTGTCTCCCAGCACCCCCCTCCACGCACAG
Seq C2 exon
GTTTTCCAGCGAAGGAAGGACGGCTCTGTGGACTTCTTCCGGACCTGGACCGCGTACAAGCAGGGCTTCGGCAGTCAGCTGGGCGAGTTCTGGCTGGGGAATGACAACATCCACGCCCTGACCGCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048155:ENSBTAT00000065623:7
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=0.023
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PU(19.7=97.7)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(20.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCGGACCTGCACGGAG
R:
CAGGGCGTGGATGTTGTCATT
Band lengths:
246-711
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development