BtaINT0061832 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048155 | FCN2
Description
Bos taurus ficolin (collagen/fibrinogen domain containing) 1 (FCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001010996]
Coordinates
chr11:106830288-106831824:+
Coord C1 exon
chr11:106830288-106830422
Coord A exon
chr11:106830423-106831395
Coord C2 exon
chr11:106831396-106831824
Length
973 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
CCGCTCCCCTCCCCGAGCAGGTG
3' ss Score
8.34
Exon sequences
Seq C1 exon
GAACCAGTGAGCTCCGGGTAGACCTCATGGACTTTGAAGGCAACCACCGATTTGCCAAGTACCAGTCATTCAGGATGGCAGATGAAGCTGAGAAGTACAAGCTGGTCCTGGGAGCCTTTGTGGAGGGCAATGCAG
Seq A exon
GTCAGAGTCTGCACGGCTCACTGCAGTGGCCAGGGCTTCAGCTCGGGGTTGGGGAAGCAGAGAAGCTGCTGGGCGTCCTGGCTCTGCCTCCCCGAGAGACCCTGGACTGGGGGCTCCCCTCTCGGGGCCCGGCTTCCCCATGTGTGATCGCAGATAAGAAGGTGCCTGCGTTTCTATGTAACGTGGGGGCCCGTGATGCTCTGAGGTCACTGACCCCGTCCTGCTAACACCTGGGAGAGAACGGTCATCTCACAGGAGGCCTTAGAGCCCCATTCCCAAGTGGCTCCACAGAACACCAACCCTGTGGGATGTTCTTTGCCAGAAAGACCCCCTGGTCACAGACTGTGGGAAGGCAATCCTTGTGGCTCATCCTGGAGCTTCCAGGGTACACTTGTGTTCAGAAATGGGGCCAGGTGCCTGCTGGACTGTGTTGAAGCAGAGCTCCGGAGAGCAAGGCCCTCCGGGATGCTGGAGGGGATGGCAAACGGGAGCCTTCAGGTGCCTGTTTGACACACATGGTCTCCTCTGAGCCGCCAAGGAAGGAGCAGGGCAGGGACCCTTGACCATGGTGTAGGTGAGGCCCAGGCAGGCGTGGGGGGCGTGGATACTGCGGGGGCCAGAGGGGAGCTGCACGCCCGGGACCGAAGCTGCAGCCAGGGCCCCCGGTGAGGCAGTGCTGGGCCCCTGGGATGACCAGGGCAAGCCAGTGGGAGGGGGCAGGGCCCAGGAGAGAGGCGCAGGCTTGGGGAAGAGAGGGGCCCCAAGGTCCTGGAGGTCTCCAGGGAGCCAGGAGGAAACAGGTGAGGCTGGAGGGAGGCTCGCGCCCTGGTGCAGAGTTCCGGGACCAGGAGGCGCCCTCTGCCCCATGGGGGTCTCCAGAGGGAGGTGCGCTGGGTGGGCGGCAGGGCCCCCCGACGGCGGCTCCCTCTAGGACCAGCGACACCCCACTCTGCCCGCTCCCCTCCCCGAGCAG
Seq C2 exon
GTGACTCCCTGACGGACCACGGAAATCACTTCTTCTCCACCAAAGACCGTGACAACGACGAGAGCCCCTCTAACTGTGCCGCGCAGTTCCAGGGGGCCTGGTGGTATCACAGCTGCCACTCGTCCAACCTGAACGGCCGCTACCTCAGGGGCCCGCACACGAGCTACGCCAACGGCATCAACTGGAAGTCGTGGGGCCGGTACAACTACAGCTACAAAGTGTCGGAGATGAAGCTGCGGCTCACCTAGGCGCCCGCAGCCTCCACGGGCTTCGCCCCATCCCCGGCGAGGGCCAGGCCCCCACGTGGCCCCGCCGCCCTCTGCCTCGGCTTGTAAAGGCGCACAGGGTCTAGTCCCTCCTGTCGGCGTCTGAATTCCGAGCCCCGCAGCCTCACCAGAAGAACCACGGTTTTAAAGAGTTTGCTTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048155:ENSBTAT00000065623:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.061
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(21.1=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(38.0=97.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACTTTGAAGGCAACCACC
R:
GCAGCTTCATCTCCGACACTT
Band lengths:
345-1318
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development