BtaINT0063320 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008300 | FN1
Description
Bos taurus fibronectin 1 (FN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001163778]
Coordinates
chr2:103881402-103882631:-
Coord C1 exon
chr2:103882521-103882631
Coord A exon
chr2:103882168-103882520
Coord C2 exon
chr2:103881402-103882167
Length
353 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TCTCTCTTCTATTTTCACAGAAT
3' ss Score
9.99
Exon sequences
Seq C1 exon
GGCTGGCGCTGTGACAACTGCCGCAGACCTGGGGCTGAACCCGGTAACGAAGGCTCCACTGCCCACTCCTACAACCAGTATTCCCAGAGATACCATCAGAGAACAAACACT
Seq A exon
GTAAGTACATTGGCGCCCTGCACGTTTCTCCTTAAAAGGCGATTAGGCATGTAGTAGGGAGTCTCTTTCCCTACTATTTCCCTACTATTCAGAAGAAAGAAGTACCTTTCTTCTGAATGAACCACATTTTTCAAAGCTCTTTTAAATGACCTAAGAGGAGAATACTGTATCCTATAATATAATGTGGGTTCTCTTGAGCATCTCCTATTGCCCAGTGTATAGCTCAAGTGCTTAAAGCTAGAAGTATTCTCCCATCTATAAGTAATTGTCAGAGAAGCCACCCTTCCCCTTTTTTCTTCTGTAGGCTTTACAGTATTTGCTGTTGATTTTTCTTCTCTCTTCTATTTTCACAG
Seq C2 exon
AATGTCAACTGCCCAATTGAGTGCTTCATGCCTTTGGATGTACAGGCTGACAGAGAAGATTCCCGAGAGTAATATTTCCAACCCAGAGAAACAAGCGTGGATCTCTGCCAAGGTCCATCCAAACTGGAGTGGTGTTCGCAGACCCCATGTTAGTGTGTTCCTTTCTTAAGCCCTTTGCTCTGGAGTAACTTCTCCAGCTTCAGCTCAACTCACAGCTTCTCCAAGCATCACCCTGGGAGTGTTTTCAGACTTTTCTCATACATGGGAGCAGTAGGTTATCTATTCTTCAAAATATTCCATGCCAATCAGTATTTTAAATGAAGTGATTCTAACTTGTGATTTGGATTGGGATCCATAGGGAAGCACATGCACCAACCAAGATACAAAATGTCTTGAAATGATATTACCAAAATTTTAAGTAGGAAAGTTACCTGAACACTTCTGCTTCCACTTAACTGACTGGCCCGCAATATTGTAGGAACAGCATGTCCTTTGTACTGTGGTATTCAGAACAGCCACAGTACTCACTTTTTCCAAATGATTCTAGTAATTGCCTAGAAATATCTTTTTCTTACCTGTTATTTATCAATTTTTCCCAGTATTTTTATATGGAAAAAAAATTGTACTGAAGATACTTAGTATGCAGTTGATAAGAGGAATCTGGTCTAATTATGGTTGGTGATTATTTTTTATACTGTATGTGCCAAAGCTTTACTACTGTGGAAAGACAACTGTTTAATAAAAGATTTACATTCCATCACTTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008300:ENSBTAT00000010925:45
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.270 A=NA C2=0.217
Domain overlap (PFAM):
C1:
PF0003913=fn1=PD(8.3=8.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGACAACTGCCGCAGAC
R:
AAAACACTCCCAGGGTGATGC
Band lengths:
348-701
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]