BtaINT0063324 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008300 | FN1
Description
Bos taurus fibronectin 1 (FN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001163778]
Coordinates
chr2:103937627-103938602:-
Coord C1 exon
chr2:103938423-103938602
Coord A exon
chr2:103937804-103938422
Coord C2 exon
chr2:103937627-103937803
Length
619 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ATGTGTGTTGTGTTGGACAGTTT
3' ss Score
7.67
Exon sequences
Seq C1 exon
CTGTAACCCAGACTTATGGTGGCAATTCCAACGGAGAGCCGTGCGTCCTCCCGTTCACCTACAACGGTAAGACTTTCTACTCCTGCACGACCGAAGGGCGGCAGGACGGACACCTCTGGTGCAGCACAACTTCCAATTATGAGCAAGACCAGAAATATTCTTTCTGTACAGACCATACTG
Seq A exon
GTGAGTATCCCAGGGGAAAACACAACAGTGAGAAAACCCCATTTCTCATGCTCTGTTTTTATTGGCCAGCAAGCTGGGCGTTCCTTTCAAGGCTACACTTGAGAAGTACCACCTTTGTGTTATCTGGACCCAAGGGACATGGATGGAACTAACTTTACAGTTAAAGATCCTCCCAAGTTTCCCAGTCGTCTTGGGAAATGACACCAAGGGGAAAGCCCTCCAGTGCGTTTATTTTTGACACATTGGGATCATTATGTGATTAAAGATGCTTGTATGGGAAAATCAGTAGGCACTCCCCCAGGCTGAAGACTACATAGAAGGCAGGCCTGAGTGCTCTTGCTTTTGTTTTGGCTAAAACCATGATTTTTTCAAAGCGACTATTTAATCTTTTTCTTTTTGGCTGGAAAAATGAGAGCAAAATTGGATTTAAATCTGCTTGAAAGGTGAAGGTGAATACACTAAGGAGGCTTAGAACTGTATTATTAGACATCTTTTATTCTGAGACACACTCTAAGTTAGTTGCAGAAACTTGGCTAGTCTAGTCGCAGTAATTCCCCACTGTACATTGGGAAGCTCAGTTGCAATCTTTTTCTTCTGACATGTGTGTTGTGTTGGACAG
Seq C2 exon
TTTTGGTTCAGACTCGAGGTGGAAATTCCAATGGTGCCTTGTGCCACTTTCCTTTCCTGTACAACAACCACAACTACACGGACTGTACTTCTGAGGGCAGGAGGGACAACATGAAATGGTGTGGGACCACGCAGAACTATGACGCTGACCAGAAGTTTGGATTCTGCCCCATGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008300:ENSBTAT00000010925:8
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:
PF0004014=fn2=WD(100=68.9)
A:
NA
C2:
PF0004014=fn2=WD(100=70.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCCAGACTTATGGTGGCAA
R:
CCATGGGGCAGAATCCAAACT
Band lengths:
350-969
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]