BtaINT0060346 @ 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
chr11:99542253-99543493:+
Coord C1 exon
chr11:99542253-99542370
Coord A exon
chr11:99542371-99543392
Coord C2 exon
chr11:99543393-99543493
Length
1022 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CCTCTTCCTGCCCTGCCCAGAGC
3' ss Score
8.18
Exon sequences
Seq C1 exon
CCGGAGTCCCAGCGGAAGGAGTTTGCGGAGAAGCTGGAGTCGCTGCTGCACCGGGCCTACCACCTGCAGGAGGAGTTCGGGTCCACCTTCCCGGCCGACAGCATGCTGCTGGACCTGG
Seq A exon
GTGAGCAGGGGTTGGGTGCAGGGTCCCTGGGGCCCAGGACCTCATCCCATCAGGGGCCCACTGCAGGGATGGGGAGACCGAGGCCACACAGGTGGGAACAGAGCTGGGACGAGGCCTTGGGAGTCTCTGGCCGGTGTGCTTTGCCCCCATCCCCTTGGGAACAGGCTTTGGCACTGCTGTGTCCACATCTCCCCCCGCCCACCCCAGCGGCCGTTCCGGGCCTTGGTTCAAGCCCTCTCCTGGGCTGTTGGGTGGGTGGAGGGGTGGCTCCCGTGAGATAAGCCCATAGCAGGCCACATGGCGGAGAGCACACGTGCCTGCACCATTGAGGTCAGGAGGCGTGACATCACCGAGAGGGAGTGAAGTTACTCAGCCGGGCAGCCATAGCATTCTAGTGCCTGCTGCGTGCCAGAGCCTGTACGGTGACTGTGCCCCACCGTGGCCCTGCCTTGGGTGCCATCAGCCTGCAGGGGGCTTACAGGACTCCTGAGTGTCGGGGTATCCAGCTCTACCAGGGGCGACACGGGCCCAGCAAGGGCAGGCTAGGGTGACATGTTCGCCATTGCCCGTCCCCGTCAGAGCAGCAGTCTTGCTTCCCCTGGCCTCCTCTCATGGCAGAAAAGGCTGGTGGGGCCTCAAGGCTGAAGCCTCTGCTTATTTGTTCAACAGATCGTTCATAAGCCCCCTTGAGGGTCCAGACCCCCTTGCCCTCGAGCAGGTGGGAACGGCAGTGCAGAATGAGTGGCCCTTTGGTATCGGAGGCTAAGTGTCAGCTTGGCAGGGGGAGGTTACTTGTTCGGGGCCATGTAGCACAGCCTGCACTCAGAGCTCAGGACCCACAGGCCTCAGGGTCCGGCAGTGCGGCTGCGGCAGGGCCCCTGGCATACTGAGAAAACCGGAAGCTTGGTGACCAGCAACATCGTCTTCCTGGGATCGGGTGTTGGGAGGCTTGGTGTCCGTGTACATCCCGGCCCGGGGAGCTCAGGATCTCAGCTCAGTCCCCCTCTTCCTGCCCTGCCCAG
Seq C2 exon
AGCGGACCCTCATGCTGCCCCTGACGGAGGGATCACTGCGTCTGCGGGCGGACGATGGGGACAGCCTGACCTCGGAAGATTCCTTCTTCTCCGCCACCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010653:ENSBTAT00000014090:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.225 A=NA C2=0.118
Domain overlap (PFAM):
C1:
PF102654=DUF2217=FE(7.2=100)
A:
NA
C2:
PF102654=DUF2217=FE(6.1=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:
GAGTCCCAGCGGAAGGAGTTT
R:
CGGTGGCGGAGAAGAAGGAAT
Band lengths:
214-1236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development