BtaINT0092591 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015097 | MGC139698
Description
Bos taurus calcium channel flower domain containing 1 (CACFD1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080263]
Coordinates
chr11:104411528-104412270:+
Coord C1 exon
chr11:104411528-104411600
Coord A exon
chr11:104411601-104412144
Coord C2 exon
chr11:104412145-104412270
Length
544 bp
Sequences
Splice sites
5' ss Seq
GGTGTGAGT
5' ss Score
6.05
3' ss Seq
TCCTCTCCCCGGCCCTCCAGCAT
3' ss Score
7.6
Exon sequences
Seq C1 exon
CTTGTGCGATCTCGGGCCTCTTCAACTGCATCACCATCCATCCTCTGAACATCGCGGCCGGCGTGTGGATGGT
Seq A exon
GTGAGTAAGCGTGCGACGGTCCTGCCTAGGGGGTTGGGGGTGTGTGTAGAGCCTCACCTTCCAGGAGGGCTGGGGGGAGCCCATGGGGGTCGAGTTGGGAGCGCTGGTCTGTGAGGCATGCCGGATGCTGGTGGTGTGCGGGGGGCTCGGGGACCTGGGAGGGGTGTGAGTTGTGCAGAACAGTTCCTGCTCCGAGGCTCGGGGGTTCTTGGGGCAAACGGGAGCTCTTTCCCTCCAGGCTGGGGGTGGGGGATGAAAGGGCCTGGCCCGCTGGAAGGGCCCAGGGTCTGGTCACTGCGACTGGGACCTGGGCTCCTCCATGGGAGCTCCCCGAGGTGGGCCGTGGCAGCCCCCAGCCTTGGCTCTGCCCTGGGCACCCTGCTCCAGCCACCCTGTTCTGGCTTGTCTCGGAGCCTGGTGGGGTGAGCAGCCCAGATAGGGGTTCCTCGAGGCAGCAGCGGGAGGGGTGGCTTCCCGGGGACACGGGCGCCGGGACCCGCCAGCCTGGCCCGGTGTCAGTCTGCTCCTCTCCCCGGCCCTCCAG
Seq C2 exon
CATGAACGCCTCTGTCCTGCTGCTGTGCGAGGCGCCCTTCTGCTGCCAGTTCATGGAGTTTGCGAACGCTGTGGCAGCCAAGGCAGACCGGCTGCGCTCCTGGCAGAAGGCCGTCTTCTACTGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015097:ENSBTAT00000020090:2
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:
PF102334=Cg6151-P=FE(21.8=100)
A:
NA
C2:
PF102334=Cg6151-P=FE(38.2=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:
CTTGTGCGATCTCGGGCC
R:
CCGCAGTAGAAGACGGCCTT
Band lengths:
199-743
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development