BtaINT0063323 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008300 | FN1
Description
Bos taurus fibronectin 1 (FN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001163778]
Coordinates
chr2:103938423-103939670:-
Coord C1 exon
chr2:103939479-103939670
Coord A exon
chr2:103938603-103939478
Coord C2 exon
chr2:103938423-103938602
Length
876 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
CCTTTTGGTTATGCTTGTAGCTG
3' ss Score
5.9
Exon sequences
Seq C1 exon
GATCTGGCTCCTTCACTGATGTCCGAACGGCCATCTACCAGCCCCAGCCTCATCCTCAGCCGCCTCCGTATGGTCACTGTGTCACAGACAGCGGTGTGGTTTACTCTGTGGGGATGCAGTGGCTGAAGACACAAGGGAATAAGCAAATGCTTTGCACTTGCCTGGGCAACGGAGTCAGCTGCCAAGAGACAG
Seq A exon
GTCTGTGTTATCTTTTTTAAAAAGGGGACCAATGACTTTCTTATTATTTAGACTTTGAAAGGCAATACATTCATTTACCAAAAAATGTAAAACAATAAAACAAGAAAAGTTTATAACCTTACCAGCCTATGATAACAACCATGGTTGGCATTTGATATCTATTTTTTCAGTCTTTTTAATCTATGTGTTTTCTTTCCTGTAGTAAGTATTAAGCTACTGTGTATTTTTTATCTGTCTAAAATGTTACAAGTGGTTACTTTCTGAGTAAACTAATCCGTCCCTATTTAGTACTCTAAATCCCAAAGTTCTGAACCTTTGTGATGTAAACTTCTTTCAACAACCTGGTGCAACTCTTCCGGGCTATAAAAGTGGTAGAAATTGTAGCAATAATAATTGGTGCACTTGACTTTTCCCCTAGTACAGCTTCTTGTATTAATTCTTACAGCATCAACAGAGCCATATATACCCCTGCAGGATCACTTGAGCAGCATCCTTAATTAACCTGTAGTAATATTTTGGGTTGGCCATAGTTCATTCGAGTTTTTCAGTAACACCTTAGAGAAAAACCCGCATGAACTTTTTGGCCAACTCAATAGCTTTGCAAATGGGGAACTGAGGCATGGCTGCTGAGGTGGTAACAATGGATGTCAGAAGAAGAACTCGGGTGTTGTTCTACCCACAAAAAAAATGTGGCTTTCTGAGTAAGGTATTTTGATAACACTATGATCTGGTTAATACTTATAGCTAGTCATATTCATAGTACTTTTTCCCCCCTTTGAGGACACAAGGTCAGCCTCAGTTAAGTGGAAAATAAGGAACAATAGTGGGAGACAAGTGCAACTCTGTTTCCTGAGACCCTTTTGGTTATGCTTGTAG
Seq C2 exon
CTGTAACCCAGACTTATGGTGGCAATTCCAACGGAGAGCCGTGCGTCCTCCCGTTCACCTACAACGGTAAGACTTTCTACTCCTGCACGACCGAAGGGCGGCAGGACGGACACCTCTGGTGCAGCACAACTTCCAATTATGAGCAAGACCAGAAATATTCTTTCTGTACAGACCATACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008300:ENSBTAT00000010925:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003913=fn1=WD(100=53.8)
A:
NA
C2:
PF0004014=fn2=WD(100=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGCTCCTTCACTGATGTCC
R:
TCTGGTCTTGCTCATAATTGGAAGT
Band lengths:
342-1218
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]