BtaINT0063313 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008300 | FN1
Description
Bos taurus fibronectin 1 (FN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001163778]
Coordinates
chr2:103891970-103893480:-
Coord C1 exon
chr2:103893391-103893480
Coord A exon
chr2:103892437-103893390
Coord C2 exon
chr2:103891970-103892436
Length
954 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
CTCTAACCTCTCTTGGCTAGATG
3' ss Score
5.45
Exon sequences
Seq C1 exon
GTCTGGAACCAGGAACAGAGTACACAATCCAAGTCATTGCCCTCAAGAACAATCAGAAGAGTGAGCCTTTGATTGGGAGGAAAAAGACAG
Seq A exon
GTAACGAGCACCTTCTGGGTAATGGGGAGCCGGCCATGACAAAACTAATTACAGACGATTTATCTTGCAGTGAAAAAATGCTCCGGGTTTTGATGTATTTCTCATGGAACTCTTTTTCCTCTAACAGCCTAGCATGTATGTTGTGCTTTTTGATAGCAAGAATGGCCTGACCATCTGCAGAGTTCAGTTTTATTTTTTTCCTAGCCAGTCAATATAAAGACCTTTTATTCATCTTTAGAAAGTTCAAACCAGATATTAGAATGTAAAAGCCAAGTTTCGATCATTGCTGTTGGTCTGTATATTCTTTTGGAGTTAAAAGTGTTTTTATAAAAAGAGGGGAGGGAAGAGAAAACTCTTTCTCATTTGTCTTTATTTACTATTTGGTTTCTGAAGCTTGAACTAAATAATGTCTTACTTTTTATCCAATTTCAGTTTAATTTGAATAAAATGCTTTATTTATGCTGATATAATTTTTAAATGAATTTTACGTTATGTGTTTTAACCTATTCTTAACATTTCAAATGATGAAAAACTACTGCACCAAACCTCTGATATTCTCATACTTCAGATGCTGATATAATTAGTCTAGATTCTAGTAATTATAACATGATTCTCAAGTGAGAAAGAGGGGAAAAAAGCCTGCATATTTCAGTTCCATTAGGCTTAATTCGAGCAGAGGCAGCTTTTATGTGGCTTAGCGTTTCAAAGCTTTGTATGATAAATTCATACTAACACTTTTTTTCCTTCTAAACTATAAAGAAAACTTTGAGAAAAATCATAAAGATTTCTTTCTGGGGAAAAAAAGTGTTTTGTGATTTAAAAACTGCTAATTTTTCAGGAGCTTTGATTAGATTGTAAAATTGTTGTTGTTGCCTGAATTGATAATGACTTCCTGAGGCTACTTCTGGGAGCTTAACACGCTTTGCTTTTTTGGCTCTAACCTCTCTTGGCTAG
Seq C2 exon
ATGAGCTCCCCCAGCTGGTAACCCTTCCACACCCCAATCTTCATGGACCAGAGATCTTGGATGTTCCCTCCACAGTTCAAAAGACCCCTTTCATCACCAACCCTGGGTATGACACTGGAAACGGTATTCAGCTTCCCGGCACTTCTGGTCAGCAGCCCAGTCTTGGGCAACAAATGATCTTTGAGGAGCATGGTTTTAGGCGAACCACACCGCCCACCACGGCCACCCCCGTAAGGCATAGGCCAAGACCGTATCCGCCGAATGTAAATGAGGAGATCCAAATTGGTCATGTCCCCAGGGGAGACGTAGACCATCATCTCTACCCTCACGTTGTGGGACTCAATCCAAATGCTTCTACAGGCCAAGAAGCTCTCTCTCAGACAACCATCTCATGGACCCCATTCCAGGAAAGCTCTGAGTATATCATTTCATGTCATCCAGTTGGCATTGATGAAGAACCCTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008300:ENSBTAT00000010925:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.527 A=NA C2=0.797
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(27.2=71.0)
A:
NA
C2:
PF0004116=fn3=PU(50.0=23.1)
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:
GTGAGCCTTTGATTGGGAGGA
R:
TGATGGTCTACGTCTCCCCTG
Band lengths:
346-1300
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]