BtaINT0063166 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004196 | FMNL1
Description
formin-like 1 [Source:HGNC Symbol;Acc:HGNC:1212]
Coordinates
chr19:45505966-45506519:+
Coord C1 exon
chr19:45505966-45506049
Coord A exon
chr19:45506050-45506381
Coord C2 exon
chr19:45506382-45506519
Length
332 bp
Sequences
Splice sites
5' ss Seq
CGCGTAAGC
5' ss Score
5.72
3' ss Seq
CTACACTCTAACCCCCGCAGGTA
3' ss Score
8.21
Exon sequences
Seq C1 exon
ATGGGTGCAGGAGTTCCTCAACGAGGAGAACCGCGGCCTGGATGTGCTGCTTGATTACCTGGCCTTCGCACAGTGCTCCGTCGC
Seq A exon
GTAAGCCGGCCCCGCCCTGATGCCTTCCCTCAGAGTCCACACCTTCCTGCCTCTCGCCCACTCCTTGGCCACTTCCAGACAGCGCAGACTGGGCCCAGTCTGGAGCCGTGCAGTGGACCCTGAGCAAGGCCCCTTCCTGAAGGCCCACTGTGGAGGGGGAGGGACAGGGCCTGTGACGGCCAGCTGGGACCTACAAGGGCCAGCCCTGCGTCAAGAACACACGCTGTTGCTCCCCCAGCCCCTAGTCTCTCCTGCAGTCTCCCCCGGTGCCCCCCACCCCTCTTTTAAGGGCCCTGGTGGGCTGGCCTCCATCTACACTCTAACCCCCGCAG
Seq C2 exon
GTACAATATGGAGACTACAGACAACGGGGCCCCAGGCTCCGAGAAGAGCAAGCCGCTGGAGCAGTCGGTGGAAGATCTGAGCAAGGGTCCGCCCTCATCCTTGCCGCCCCCGCCCAAGAGTCGCCACCTGACCATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004196:ENSBTAT00000034825:5
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=0.894
Domain overlap (PFAM):
C1:
PF063718=Drf_GBD=FE(19.2=100)
A:
NA
C2:
PF063718=Drf_GBD=PD(6.8=21.3),PF063718=Drf_GBD=PU(3.8=6.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGGTGCAGGAGTTCCTCAA
R:
TTGATGGTCAGGTGGCGACTC
Band lengths:
222-554
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development