BtaINT0060341 @ 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
chr11:99532347-99533638:+
Coord C1 exon
chr11:99532347-99532583
Coord A exon
chr11:99532584-99533427
Coord C2 exon
chr11:99533428-99533638
Length
844 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
GTCCCCCTCTTCTCCCACAGTCT
3' ss Score
11.08
Exon sequences
Seq C1 exon
CTCTGTGCAGGGACCTTCTGGTCTGTGCGTCTCTGTTCTTTTGGGGCGTGGATGGTACCCAGGACCCAGCCAGCAACCCGTTGAAGACGTTCTTGGAAGCTTTCACCCCCGAGGGCTCTCACCCGGGCCGCTGATCCTGCCATGGCGTTCCGGCGGACCGAGGGCATGTCCATGATACAGGCCCTGGCCATGACAGTGGCTGAGATCCCTGTGTTCCTTTACACGACGTTCGGGCAG
Seq A exon
GTAAAGATCGGGGCAGTTGTGGTCCCGCCCTTTACCCCACTGGTCCCTGAAACACTGAGCCACTCATCCCAGGGTCCTTCAGCATCCAGAAAGACTGGGCCCTCGTAATTGCTGTCCCAGGCCATCCTCTTTGAGCAGAGTAAGAAGGACTGAGTTAGGAGTCTGGAGTCCCAAGCCCAGTCTCCACCCCGGGTCTCTGTGGACTTTTAATCTCAGTTTCTCTGTCTATACCAGGGGTCGATCAGGCCCTCCCTGCCAGCTTTAAAAGTCTGTGGCTAACCAGGCCTCCTGACCCTCCCTAAAGCTCTGCCCTGTGGGGTGCAGCCTTATGAGGGGCTCCCTGTCCAGCAGGCAGAGTGAGGGGTGGGGCAGGGGAGCGTACTGATGGACCACCGACTGAATTGAATATCATTGTCCTTGAGGAGTTGAGAAGTGGGGTCGGCAGACCTGGGTTCGGTTTCTGCCTCTCTGTCACCTTAAGCCCGTGTCCTAAGGTGTGTGAGCCTCGGATACCTCACCTGGAAAATGACGGGCATTCGGACAGGTAACACAGGTGCAGTCCTGACGTGGCACCTGCAGAGGTGCTGTCACCGCAGCTGGTAGAATCCTGACCGATGGTGTTGGGGACACCATCTCCTTGGCCTTGTATTTTGCCCTCCCCAACCCCCCTCATTTACATCTCTGTGATCTGGGTTTCAGAGGCCAGGTCCCCCCCGCAGGGGGTGGCTGCCTCTCCAACATGCCTGGTCAAGAAATATCCCCCGGGGGCCTGAAGTCTTCGCTGGGCTCCCCAGGGCAGCTCTCCCAGGGAGATGTAACCGACAGTCCCCCTCTTCTCCCACAG
Seq C2 exon
TCTGCCTTCTCCCAGCTGCGGTTGACACCAGGCCTGCGGAAGGTCCTCTTTGCCACGGCCCTGGGGACTGTGGCCTTGGCCCTGGCCGCCCACCAGCTGAAGAGGCGACGGCGGAAGAAGAAGCAGGTCGGGCCCGAGATGGGAGGCGAGCATCTGGGCACAGTGCCCCTCCCCATCCTCATGGCCAGGAAGGTCCCGTCGGTGAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010653:ENSBTAT00000014090:2
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=0.225
Domain overlap (PFAM):
C1:
PF102654=DUF2217=PU(0.4=6.2)
A:
NA
C2:
PF102654=DUF2217=FE(13.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTCTGTGCGTCTCTGTTC
R:
GACCTGCTTCTTCTTCCGCC
Band lengths:
349-1193
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development