BtaINT0061750 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013926 | FCGRT
Description
Bos taurus Fc fragment of IgG, receptor, transporter, alpha (FCGRT), mRNA. [Source:RefSeq mRNA;Acc:NM_176657]
Coordinates
chr18:56416215-56416841:+
Coord C1 exon
chr18:56416215-56416301
Coord A exon
chr18:56416302-56416592
Coord C2 exon
chr18:56416593-56416841
Length
291 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCTGCTTTCTTCGCCGGCAGAGA
3' ss Score
8.51
Exon sequences
Seq C1 exon
GTCTCCCACTCAGGATGCGGCTTCCCCGGCCTCAGCCCTGGGGGCTCGGTCTGCTGCTCGTCCTCCTGCCTGGGGCGCTGAGCGCAG
Seq A exon
GTGAGGGGCTGCCGGGCACGAGGGAGGTGCCAGCCTCCGGGAAATGACCGAAATCCAAGATCCCCAGCTCGAGCAGGGGGACTTCCTTCTCGGCCGCATTTCGTCTGGTTTCCCACGATCTTTTCTCCCTCTGGCGGTCTGTCTGGAAAACACCTGTCCCCTTCTTCCTGGGACTCCGCCCCCCCCCACCCCGCCAGGGTCTGGCCCCTCTGTCTGGGGTGGGGGTCTTTTCTCTCCCGGGGTGTCTGTCCCATCTAGGTCCCCCGCCCCATCTGCTTTCTTCGCCGGCAG
Seq C2 exon
AGAACTATCGCTCGCTCCAGTACCACTTCACCGCCGTGTCGGCCCCCGCAGCGGGGACCCCTGCTTTCTGGGTTTCGGGCTGGCTGGGGCCCCAGCAGTACCTGAGCTACAATAATCTACGGGCGCAGGCTGAGCCCTACGGCGCGTGGGTCTGGGAAAGCCAGGTGTCCTGGTATTGGGAGAAAGAGACCATGGATCTGAGGAACCAGGAGACGCTCTTCCTCGAAGCGCTCCAAGCTTTAGGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013926:ENSBTAT00000018500:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0012913=MHC_I=PU(48.0=97.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCCCACTCAGGATGCGG
R:
AAGAGCGTCTCCTGGTTCCTC
Band lengths:
306-597
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development