BtaINT0063316 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008300 | FN1
Description
Bos taurus fibronectin 1 (FN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001163778]
Coordinates
chr2:103887850-103890873:-
Coord C1 exon
chr2:103890735-103890873
Coord A exon
chr2:103888015-103890734
Coord C2 exon
chr2:103887850-103888014
Length
2720 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
TTCTCTCTTTCTTCCTGTAGTTG
3' ss Score
9.95
Exon sequences
Seq C1 exon
TTCCGAGTTCCTGGAACCTCTGCTAGTGCCACCTTGACGGGCCTCACCAGAGGGGCCACCTACAACATCATAGTGGAGGCAGTAAAAGACCAGCAGAGGCAGAAGGTTCGCGAGGAGGTGGTTACCGTGGGCAATTCTG
Seq A exon
GTATGTGAATGTCCAGGTTATTCAGGCACACTGTGGACCAGCCCAGTGATGCTTCTTCAAGCGACTGTTCTTTTCCTGTTTTTGTCTTTTGACTTTGGGAAATAATTCCATGAAGAAAATGAGCAACTTTAAATTCCATCCTTTTTCCCTCAAAGTAGCCTGGTATGTTTGTAAAATAAATAAGAAAGAGTCTCAAACATGATTGGGTGATAGGCCTGGAAGGGACTTCAAATATTGTTTAGTCCAGCACTCTTGAGTTCCAGCTGTAAGTACCGGGTGTGACACAGGACACAAGTCTCCAGATCTCTATTTCCAGACCCTCTTCATCTTACTAGGTTGCTGCTCCTGAGTAATGTTTAAGTACTGAAATGATTGAAAGTGAAAGTGTTACTCACTTCAGTCATGTCTGACTCTTTGCAAGTCCATGGGCTGTAGCCCGCCTGGCTCCTCTGTCCGTGGAATTCTCCAGGCAAGCATACTGGAGTGGGTTTCCATTCCCTTCTCCAGGGGATCTTCCCAACCCAGGGATTGAACCTGGGACCCAGGTCTCCCATATTGCAGGCAGATTCTTTACCATCTGAGCTACCAGGGAAGTCCTGGTGATTACCTGTAAAGGAAATTCCTTATCTGCGTATATATATCAGTGCCTGCTGGGTTTTGTTCCTGATGTAAAATGCTACCAACATAGCCCATTTCTGTCCAAAGAGCTCCCTTATTCCCACATTATTTCATGATTGTGTGTATATGCTCAGTTACTCACCTGTCTCTGACTCTTTGTGACCCCATGGACTGTAGTCCATCAAGCTCCTCTGTCCATGGGATTTCCCAGGCAAGAATACTAGGGGCTCTGACTCAGGGATTGATTGAACCTGCATCTCATGTGTTGGCAGGCAGATTCTAGCTGATATTTCATGATTATAGAGGCCCGAACCTGCAATAGAGGTTAAATGGTCATTGACTCTTCTTTATAGCACCTGTATATTTGTTTGTTTTCGTTTTTTGGCCGTGCCTTGTGGCTTGCAAGATCTTAGTTCCCTGACCAGGGACTGAACCCAGGCCATGGCAGTGGAAGTGCCAAGGCCTAACTACTGGACTACTGGGGATCCCTAGAAAGTCCTTTTAAACCAGTAGTGTATCAGCTAGCTTTTCAAACTTCGACAGCTAAAGATTCACCAGAAACATGAAATAGAGAAATAATCAGAACCATGAATCTTCCCACCGGAGAGTTCTCTATTTCCTAACCCTAAATTCTATCTGCCCAGTGATAGGTTTTATTCCTATGGCCAGATACTTAACCTCAGCCTTCTTTCTCATTTGATAGATCACTGTGTTCTTTTACATATAAACTCCTCTGAATTAGCAGTTGAATTTTTTTTGGGGGGGGTCATGGATCATTTTATGCTTATTGAATTATATATCCATTTAATGCACACCTTTTGCTTCGTGTGGTTTTGCAAGTAGAATGCCACATGAAAGGAATTTTCAAGAGCACAAAGGACTTTGTGCTTTTTCCTCATCGTTTTTTAAAAAGATTCCATCTCCAAAACTTTACTTCTGGTTATTTTTAGGAGGGTTATTGAAAACCTCTTAGTTTAAGTTCCTTCCATTTTTCCTTCCGACTCATTACCAACAGTAATATTCTGCATTCTAGCCAGGTTCTCCCAGCTCTGAGACATTACAGATGTCTTAGTTTTAACAAAACTCTTATTTTCTTCCAGTTTGATCCCTTTCAAAATATTAGGCACTTCAAATATTATTGCTTTTGAGTTTTTTGTTTTTGCACTGTGAAAAGAAATGTACGCAGTGGTATTCAAAGTCACAGAAGTTAGTTTATTTAATTTTTAGAGACTGAATTGAAGCATGCTTTATTTGCATAGATTATTTTAAAATCAGCTTTCACAAAACATAAAAGACTGGATCTTAGACAACATGAAGAGATTCCATTAGTGATTCCTAAGTCACTGATATTCCACTACTTCCTTTTACTTGGAACAGTTGGGTTTATTGATAAAAGTAAAGCAGTCTGACCATTATGACAATAATGTACAAAATCTAGGCTTTTTGCACGATTATGCAAAACATGCAGTGAAAGTGACTATCACATTTATGTGATTACATTTTAATGGTATATAAAATTGCTATGACTTTTGCATTAAAAGCAAAAGGCGCCCTCTAATAATTACTCTTTATTTGGTGAGCATGTTCTAAGTGTTGGCAATAGGCCAACACCTGGAATTCATGATCGCATGTGATCTTCACAAGATCCTCAGCAGGAGGAAGTATTTTTATTATTATCCCCACATTACCAAGGAAGGAAAAAAGGCAGAGAAACATTATATTACTAGCTTAAGGTCACTCAGATACTGATGGAGAGGAATTTCCAGCATTTGCACCCCATGAAGTTCTTAATTGCCTCACGATCTGTTCCATGTTCTATGAATTATATTTACCAGAAATGATGTAGTTTTTTTTTTTTTTTTAGAACTGAGGGCAAAAATGAAAGATGGACTCCTTTTAAGAGGCTGTTGCAAGTGTTGACCAGCAAAATCTAAGCATTGTTCATTAGAGCAGCTGATGCACTGATGGAACACATGAGTGCTTCTTAATGCTGCTGGGATTTTTGGTTTAGAATAAGTCATCATATACGATAATTTGGTTTTCTTCTTATGGTCCAGAGCTATAATAAAATGTCTTTTTTCCTTCTCTCTTTCTTCCTGTAG
Seq C2 exon
TTGACCAGGGCCTGAGTCAGCCCACAGATGACTCCTGCTTCGACCCCTACACGGTCTCCCATTATGCCATTGGAGAGGAGTGGGAGCGATTGTCTGATTCTGGCTTTAAACTCTCGTGCCAGTGCTTAGGCTTTGGCAGTGGTCATTTCAGATGCGATTCATCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008300:ENSBTAT00000010925:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.298 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(47.2=72.3)
A:
NA
C2:
PF0003913=fn1=WD(100=71.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]