BtaINT0058862 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003572 | F11
Description
Bos taurus coagulation factor XI (F11), mRNA. [Source:RefSeq mRNA;Acc:NM_001008665]
Coordinates
chr27:15357119-15359010:+
Coord C1 exon
chr27:15357119-15357278
Coord A exon
chr27:15357279-15358900
Coord C2 exon
chr27:15358901-15359010
Length
1622 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
CCATTTTGGTCTTCATTTAGTAA
3' ss Score
5.46
Exon sequences
Seq C1 exon
CTTGCAGCAAAGACATGTATGTGGACCTAAACATGAAGGGGATGAACTATAACAGCTCCCTTGCCCAGAGCGCTCGGGAATGCCAACAGAGGTGTACAGACGACACGCACTGCCATTTTTTTACATTCGCCACAAGGCACTTTCCAAGCATAAAGGATCG
Seq A exon
GTGAGCGAGCTGTGGGCTGATGGAAAACAAAACGGAATTCTTTTTTTCCCTATCAACTTGATGTCAAATTTTATTTTCAACCCATGCAAGACAATTCTAAAAATACTAATACTATAGATTTTTTGGTGAAAAATGTATTTAAAGTCCAACGTGGATGCACTTCCTTTTATAATACAGAATCTGTCTTTCAGTGACACATCAAAAATGTTAAATCCACCTCCTAGCTAATTTATTGTTGTTGCTGTTTAGGCTCTTAAGTTATGTCCAACTCTTTTGTGACCCCATGGACTATAGTCTGCGAGGCTCCTCTGTCCACGGGATTTCCCAGGCAAGAATACTGGAGTGGGTTGCCATTTCCTTCTCCAGGGGATCTTCCTGACCCAGGGACTGAACCGGTGTCTGCTGCTAATTTATAGAGTGCTACATTTCTTAATTGGCGATTTTAAAACAGTTGTAATGGTCAGTCAGTCCCCTTCTCAGCCTAAAGGATGCTACAGCCTGAACTTGTAGAATCAAAAAGAAAAACCTACTCAGATATCCTCCCAAATAACAGTTCCCCGCCTGAGACAAAGTAACGGAAACCTGTGTGAAATACTTTAAAACTTGTCCCGCTACTAGATTTTGAAATATTCCAGGGGTAAATATATTCTGTAAAAATATAAAAGGATCTGATTTGCAATTTATTAACTTCTTTTCTCTTAAATATTTTTAGGGAAAATATCGTTAACTTTTAAATTTAGAAATATTTGAGATATTTTGGATTTGTATAGGGAGCTGCAATTATCTGGAGCTTCCCTGGTGATTCAGGGGTAAAGAATCTGCCTGCAATGCAGGAGCCATGGGAGGTGTGAGTTCAGTCCCTGGGTTGGGAAGAGCCCCTGAAGAAGGAAGGGGCAAACCTTTCCAGTATTCTTTCCTGGGAGATTCCATGGACAGAGGAGCCTGGCAGGCTACAGTCCATGGGTTCACAGAGAGTCGGACATGACCAAAGCGACTTAGCACACACACGTGCTATACTTATCTGAAATCCAACGATAAAAGAAGAACTCAAAATGACTAGTATTTGGATTTTAACATTCTGATCTACACATTCACAAAAAGGAGATGAGCGGAAATAAAGTGTCAAAGATTTACTTGAAGAAAAGCAATGAATGATAACACAAGATGAAGTTCTCAAATCAATAATTAAGGTTTTGTGGTTTATCTTTAGCTCAGCTCAAATCCACCTTTCTACATATTTTATGTGTAAGATTCAATGCAAAGTGAACAGCAAGCCAGGACCTCAGGAGTTGCTAGGTATTATTTGAAAAGTTAAAATGGTAAAATTGAGACGAGCTTGAGAAGTCTTTAATTCTTACGTCACCACTCTTCATGTTACTACCCATCTAAAGCTATCATTTTACTGATGAAAAAATAAAACTGACAAAGTTCACAGAACCACCAACTCCCAGCAGAGATGGGACTCAAGAGCAGCTGTCTAGTCTCTCAGATCAAAGTTTTCAGAGCAATTCTTTAGCTTCCATGCCCAGGCCATCTCTAAATGTGAATTTTTTATCATCTTATATTTTTCCTTACTTGCGTTTGGAGGGATAAAATAATTTTCCATTTTGGTCTTCATTTAG
Seq C2 exon
TAACACTTGTCTGTTGAAGAACACCCAAACAGGGACACCAACCAGCATAACGAAGCTCCACGAAGTGGTATCTGGATTTTCTTTGAAGTCCTGTGGCCTTTCTAACCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003572:ENSBTAT00000004648:5
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=0.000
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=PU(60.5=90.7)
A:
NA
C2:
PF0002421=PAN_1=PD(38.3=81.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGCAGCAAAGACATGTATGTGG
R:
CCAGGTTAGAAAGGCCACAGG
Band lengths:
270-1892
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]