BtaINT0061831 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048155 | FCN2
Description
Bos taurus ficolin (collagen/fibrinogen domain containing) 1 (FCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001010996]
Coordinates
chr11:106829288-106830422:+
Coord C1 exon
chr11:106829288-106829417
Coord A exon
chr11:106829418-106830287
Coord C2 exon
chr11:106830288-106830422
Length
870 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGG
5' ss Score
5.76
3' ss Seq
TGAACACCTTCCTTCGACAGGAA
3' ss Score
8.26
Exon sequences
Seq C1 exon
GTTTTCCAGCGAAGGAAGGACGGCTCTGTGGACTTCTTCCGGACCTGGACCGCGTACAAGCAGGGCTTCGGCAGTCAGCTGGGCGAGTTCTGGCTGGGGAATGACAACATCCACGCCCTGACCGCCCAGG
Seq A exon
GTAGGGCCACGGCGGGGGCTCTGTGGTTGGGGGGCCTGCAGCCCACAGCTCCTGACCCTAGTCCTGGGCTGTGTGGAGCAGAAGGCCTTGCCCCTCACGTGCTCCCCTCTGACAGCAGGAAGGCTATGCCTTTGCCAGCAGGGAGGCATGCTTCTCAGACTCTCTGAGGGTCAAAATCGGGAGAAGGGGGGTTATTGGAGGGAAGATGTCTTCTGGTCTCAGGACCAATCAGACCTTAGAACCGGAGACGAGGAAGTGGGCAGGAGGCCATCTGGACTGGGGTGGCCCTCCTCTCTCTTCCAGTCGTCAGTCCTGCCTTGAAACTGGGCTCTGAGGCCCACAGAACCCCTTCCCTCCTTCTCCCGGTCACTGCATGTGGGGGTCCCGACACGGGCCCCCTCAGCCCACTGCTCTGTTTCATAGAATCAGCCTCACGGGTGGTCCTAAGTTCAACTGTAAACCTGTGAATCCTATTTTAAATTCTTCCACTACCTCAGGGCAACCGTGAAGGTGTCCACTCATGTGCCTGAAATTCTTGCAAAAGAAACAAATACAGATACACTTTCCTGCCCTGGCATTCACAGCGGTTTGCAGGAGAATTTAGGGTTTCCAGTAGAGTGAGGCTTCATTCCATTCAAGGAATACCAACTGTGGGATTTGGGGCGAGGCTGGTGGAACAGAAGGGGAGCCATCGGAAGTCAGGGAGCCCTCCCTGGAGCCTCACATCCACAAGCCTCTCACACCTTCCCCGCTGAATTATCCCCGAATGCCAAGTTCAGACACGCCTCTAGAACTTACCCAAATTCTCACCTCCTTTGCCTGGAGGTGGAGGGTCCCTTCTGCTTAGACCTGAACACCTTCCTTCGACAG
Seq C2 exon
GAACCAGTGAGCTCCGGGTAGACCTCATGGACTTTGAAGGCAACCACCGATTTGCCAAGTACCAGTCATTCAGGATGGCAGATGAAGCTGAGAAGTACAAGCTGGTCCTGGGAGCCTTTGTGGAGGGCAATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048155:ENSBTAT00000065623:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(20.2=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(21.1=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:
TTTTCCAGCGAAGGAAGGACG
R:
CTGCATTGCCCTCCACAAAGG
Band lengths:
264-1134
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development