BtaINT0061751 @ 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
chr18:56416593-56417223:+
Coord C1 exon
chr18:56416593-56416841
Coord A exon
chr18:56416842-56416947
Coord C2 exon
chr18:56416948-56417223
Length
106 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TCCGTGTGTGGGCACCCCAGGCC
3' ss Score
4.55
Exon sequences
Seq C1 exon
AGAACTATCGCTCGCTCCAGTACCACTTCACCGCCGTGTCGGCCCCCGCAGCGGGGACCCCTGCTTTCTGGGTTTCGGGCTGGCTGGGGCCCCAGCAGTACCTGAGCTACAATAATCTACGGGCGCAGGCTGAGCCCTACGGCGCGTGGGTCTGGGAAAGCCAGGTGTCCTGGTATTGGGAGAAAGAGACCATGGATCTGAGGAACCAGGAGACGCTCTTCCTCGAAGCGCTCCAAGCTTTAGGCGAAG
Seq A exon
GTGAGACGGGGACTTCCTGGGCGGGGAGCCTGGATCCCGGGTCTGAGGGAGGAGGGGACGGCGGACCCCTGCTCCCGGGCCGCTCATCCGTGTGTGGGCACCCCAG
Seq C2 exon
GCCCCTTCACCATGCAGGGCCTGTTGGGCTGCGAGTTGGGCCCTGACAATGTCTCGGTGCCGGTGGCCAAGTTTGCCCTGAACGGCGAGGAGTTCATGATGTTTGACCCCAAGCTGGGCATCTGGGATGGTGACTGGCCTGAGTCCCGGACTGTCAGTATCAAGTGGACGCAGCAGCCAGAGGCGGTCAACAAGGAGAAGACCTTCCTCCTCTACTCCTGCCCACACCGGCTGCTGGGGCATCTGGAGAGGGGCCGGGGCAACCTGGAGTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013926:ENSBTAT00000018500:3
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=0.032
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(48.0=97.6)
A:
NA
C2:
PF0012913=MHC_I=PD(51.5=94.6)
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:
AGGAGACGCTCTTCCTCGAAG
R:
CTTCTCCTTGTTGACCGCCTC
Band lengths:
242-348
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development