BtaINT0061825 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048155 | FCN2
Description
Bos taurus ficolin (collagen/fibrinogen domain containing) 1 (FCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001010996]
Coordinates
chr11:106824398-106826894:+
Coord C1 exon
chr11:106824398-106824511
Coord A exon
chr11:106824512-106826831
Coord C2 exon
chr11:106826832-106826894
Length
2320 bp
Sequences
Splice sites
5' ss Seq
AGGGTGCGT
5' ss Score
7.22
3' ss Seq
TGTGTCTTTGGGATTTACAGGAG
3' ss Score
6.74
Exon sequences
Seq C1 exon
AGGTGAAGCTGGTGGGTCTGGAGGGCTCCGACAAGCTGTCCATCCTCCGAGGCTGCCCAGGGCTGCCCGGAGCCCCAGGGCTCAAGGGAGAGACGGGTGCCGCTGGACTGAAGG
Seq A exon
GTGCGTGCCCCGGGTGGGGACGGGGCTGGTGGACTGAAGGGTGCGTGCCCCGGGTGGGGACGGGGCTGGTGGACTGAAGGGTGCGTGCCCCGGGTGGGGACGGGGCTGGTGGACTGAAGGGTGCGTGCCCCGGGTGGGGACGGGGCTGGTGGACTGAAGGGTGCGTGCCCCGGGTGGGGACGGGGCTGGTGGACTGAAGGGTGCGTGCCCCGGGTGGGGACGGGGCTGGTGGACTGAAGGGTGCGTGCCCCGGGTGGGGACGGGGCTGGTGGACTGAAGGGTGCGTGCCCTGGGTGGGGATGGGGCCACAGAGCTCCGGCTCTTCTCAGACCAGAGCCCGAGCAGGGCTGTGCCCGCTGAGGCACCTCAGTTGGGAAGTTTGGGTCACGGGTTCTGCCCAGAGGTGACCCCGGCACCCCCCCCGGCACTGCCGTCCCCGGAGCAGGGTGCTGGTCTCAGCTCTTCTCAGCTCACGTCTGGGTGTCTTCTCATGGAGCATACGCTTCCAGGCCCTTGATCAGGACTGGCTTTTCCGTGACCGTTGGCAGGAGCTCTGCACCTCAAGCACCCGGTGAACTCACCCGGAAACCGGGGCCCCAGGTTTTCCTCCCTGCGCCTCAGAGGAGAAACCTGGGGCTCCGAGCAGCCATGCACGGCCAGGGAGGGAGGAGCTGGGTCTCCACCCAGTGTGAGGGCCCCCAGCACTCCACACATCTGCCCACATGGCAACCCCCTCCCCTTACAAGGTTTGCGGCCCTGAAACGGGCTCTGAGACGGGGTTCTGCTGGGGGACCCCAGGATGAGGGCACTTCTGGTCCGCAGCCTGCCAGGGGCTGTGTTTACTTGGCCACAAGCGGAAGCGGCCCTGCCCCTCTGTCCCACCCCCACACCCCACACCCCAGGGCGGTGAGCCTGTGAGTAGACCCCTGCCCTTCCGTTTGCTGAGCCTGGGGCAGCCTCTCCCGACCTCCCATCAGTGCCTGGGAGGAGGGGAAGGGGCCCTGGGTGGTCCTAGCCTCCTGCCAAGGTTAATAATGCAGACCTGGGCCTCATTATTTCTTGGGCTCCAAAATCACTGCAGATGGTGACTGTGGCCATGAAACTAAAAGACACTTGCTCCTTGGAAGAAAAACTATGACCAACCTAGACAGCATATTAAAAAGCAGAGACATCACTTTGGCGACAAAGACCTGTCTAGTCAAAGCTGTGGTTTTTCCAGTGGTCATGTACAAATGTGAGACTTGGACCATACGGAAAGTTGAGCCCTGAAGAACTGATGCTTTTGAACTGTGGTGTTGGAGAAGACTCTTGAGAGCCCCTCGGACTGCAAGGAGTCCAACCAGTCCATCCTAAAGGAAATCAGTCCTGAATGTTCATTGGAAGGACTGATGCTGAAGTTGAAGCTCCAATACTTTGGCCACCTCATGTGAAGAGCTGACTCATTGGAAAAGACCCTGATGCTGGGAAAGATTGAGGGCAGGAGGAGAAGGGGACAACAGAGGATGAGATGGTTGGATGGTATCACCTACTCAATGGACATGGGTTTGAGCAGTCTCCGGGAGTTGGTATTGGACAGGGAGGCCTGGTGTGCTGCAGTCCATGGGGTCACAAAGAGTCGGACACGACCGAGCAACTGAACTGAACTGAACTGGGGCTTCAGGCTGCTGACCCTTCCCCTCTGGAGGTGGAGTCGGAACCTTCCCAGTGGGATACGTAATTGTGTCTGACCTCCCTGCATCTGAGTTCAGCTGGTGATTCAGACAGTAAAGAATCTGCCTGCCATCCATGAGATCCCTGGGTCTGACTCCTGGAATGACAACCCACTCCAGTGTTCTTGCTTGGAGAATTCCATGGACAAAGAGCCTGGTGGGCTGCAGTCCGTGGGGTTCCAAAGAGTCGGACATGACTGAGCAGCTAACGCTGTCCCCTGCATCCAGGGTGGAGCACAGAGAGCTGGGCCCGAGGCTCGAGACTCCAGGTGCCCCCGTGTGATAGGGTCTGTGAGGACGTGTTCCTGGCCCCAGCCCCCGATTGGACGGCAGAGCTCTGTGCGGTGGCGTGGACCTGGGCCTGCTCCACAGAGGCCTGCAGGAGCTGGACGCCGGTGGCGCCCTGGGGTGCCGGCTGTCTGCAGCGGGGGCCACGGGCACTTGGTCCCCACTGTCTCCGGTATCACCCTCAGGCTGGGGCCCGGTGGCAGCAACCCTGAGGATACTGGAGCTGGGATGGGAGGGTCAGGACTTTATTTCTCAGGGCAGACAGAGCTCAAGTAAGGTGCCTCAGATGGCCTTTCCCAATGGTGTGTCTTTGGGATTTACAG
Seq C2 exon
GAGAACGAGGTTTGCCCGGAGTCCCTGGGAAGGCAGGGCCGGCTGGACCCAAAGGAAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048155:ENSBTAT00000065623:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(39.7=59.0)
A:
NA
C2:
PF0139113=Collagen=FE(36.2=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