BtaINT0060337 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010653 | FAM73B
Description
Bos taurus family with sequence similarity 73, member B (FAM73B), mRNA. [Source:RefSeq mRNA;Acc:NM_001076053]
Coordinates
chr11:99548346-99548806:+
Coord C1 exon
chr11:99548346-99548444
Coord A exon
chr11:99548445-99548671
Coord C2 exon
chr11:99548672-99548806
Length
227 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
AGCACCGCCTGGCCCTGCAGGTG
3' ss Score
8.26
Exon sequences
Seq C1 exon
AGCCCCAAAGGCTTCCTGGAGAGCTACGAGGAGATGCTGAGCTATGCCCTGCGGCCGGAGACCTGGGCCACCACGAGGCTGGAGCTGGAGGGCCGAGGG
Seq A exon
GTGAGTCGCTGTTGTGCTGAGCCTTGGTGTCCTGGGGTCTCCCCACCTGAGCTCCTTGAGCGGGGTGGAGGTGCCCCCTGGAGCTCAGCCTTGATTCCGAGGCTCTGAGATGGCTCTACTGCTGCTGGAAGCCCCCGTTCCCGCCCTGCCCCAGGCCTGGGCTGCCAGGAGGGTGGCCCCTGCACACCGCACCCGCTCCAGCCTCAGAGCACCGCCTGGCCCTGCAG
Seq C2 exon
GTGGTGTGCATGAGCTTCTTTGACATCGTGCTGGATTTTATCCTCATGGACGCCTTCGAGGACCTGGAGAACCCCCCGTCCTCGGTGCTCGCCGTCCTGAGGAACCGCTGGCTGTCAGACAGCTTCAAGGAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010653:ENSBTAT00000014090:12
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=0.000
Domain overlap (PFAM):
C1:
PF102654=DUF2217=FE(5.9=100)
A:
NA
C2:
PF102654=DUF2217=FE(8.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAAGGCTTCCTGGAGAGCT
R:
CGTCTCCTTGAAGCTGTCTGAC
Band lengths:
230-457
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development