BtaINT0063346 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020313 | FNBP1
Description
Bos taurus formin binding protein 1 (FNBP1), mRNA. [Source:RefSeq mRNA;Acc:NM_001206712]
Coordinates
chr11:100361051-100361955:-
Coord C1 exon
chr11:100361899-100361955
Coord A exon
chr11:100361199-100361898
Coord C2 exon
chr11:100361051-100361198
Length
700 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
GTGTGTGTTCTGTTCTGTAGGTA
3' ss Score
11.2
Exon sequences
Seq C1 exon
GAACCTTTCAAAGAAATACCAACCTAAAAAGAACTCGAAGGAGGAAGAAGAATACAG
Seq A exon
GTGTGTTTATCACTGATTGTTATGTGGGCGTATGTATATGTCCTTGGTGATGATTATAAAGGAAATCTACATATACTCTGTAGATGTAGTGTACCTACAAAAATAAGTTGCATTCCTCATTCATATTTGTGTCAATTTTTAAATTGGGGGAAGACAATAAAAACTTAAATAACTTTTCTTATAGAGGCACTAGACCTCGTCCAGATTGTTTCAATTAAGGTAATTAGGAAAAGCTTAGCCTATAAGCAAATACAGGAAGTGTGGATGGACTGTGCATTCCACATCTTGGTAAATTCAGGTGTCTCATTCATCTAGGAAATATGTCCGTTTCAGACAGCAGTTAAGACATCTTAACATGGCTAGTCCAAAAGTATCATCTCTAATTTAGATCTAAATATCCATGACATTAGAACATTTAGTAGATATATGTATTTGGGGTTTTACCTGGGCTAGTAACAAAGCCAAATGTTGCCTGATACAGAGCAATTTGGCTTCGCCAAATGAAAAATGTTTCAGTTGTAATTAATTGTGTGCCATGTTGATGAGAACACCCTGATGTGTAATGAATTTGTCAAGACCCTATGGGAGCTGGAGGCATATTACCCTGATAGTAACGTTAATTACTCTTTCGCTGGCGGGAAGCCGCGTGAGAGAGGATGTGCCCTGTTTGGAAAGGAGTGGTGTGTGTTCTGTTCTGTAG
Seq C2 exon
GTATACGGCTTGCCAAGCCTTCCTTGCCACCCTGAATGAAATGAACGATTATGCTGGGCAGCATGAACTCATCTCCGAGAATATGACCTCTCAGATCATTGTGGAGTTAGTGCGCTACGTCCAGGAACTGAAGCAGGAGAGGAAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020313:ENSBTAT00000027072:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.070
Domain overlap (PFAM):
C1:
PF0061118=FCH=FE(20.2=100)
A:
NA
C2:
PF078236=CPDase=PU(3.8=27.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACCTTTCAAAGAAATACCAACCT
R:
TCCTCTCCTGCTTCAGTTCCT
Band lengths:
200-900
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development