BtaINT0039280 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015085 | CLIC3
Description
Bos taurus chloride intracellular channel 3 (CLIC3), mRNA. [Source:RefSeq mRNA;Acc:NM_001100301]
Coordinates
chr11:106229012-106229915:+
Coord C1 exon
chr11:106229012-106229065
Coord A exon
chr11:106229066-106229805
Coord C2 exon
chr11:106229806-106229915
Length
740 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCCA
5' ss Score
3.41
3' ss Seq
CCCCGTGTCCCCCACTCCAGGCC
3' ss Score
9.13
Exon sequences
Seq C1 exon
GCTGCCGCGGCTCCCACCATGGCTGAGGCCGGCAAGCTCCAGCTCTTCGTCAAG
Seq A exon
GTGCCAGGCTGCCTGGGCTGGGGGAGGTCCCGGGGACGGGTGCTCCGTGGGGCTCTACTTTCTGGGGCAGGCTGAGGGGGGTCTGCGGCAGTGTCTCCTGAGGTGGTGGGCTCAGGCTGTCTCGTGGAGGCTGTGTAACTGGGGGCGGGGGTGCATTAGAAGGGAGAGAGCGCCATCCCCGAAAGGGCTGCGGTGGCCCCATTCTCCTGGGAAAAAAGCCCCTTCGGGGCTGTGCCAGGCAGGTAGCCCAAGACCGGGGCTCAGGGGCTGTGCCAGGTAGCCCCCTCAGTGCCCAGATCTGTGATTCCTGTGAAGGGACTGCCAGGTCCTGGCCTCCTCCCACCCTTGGAGCCCGGGGCAGCAAGGTGCCCAGTTGGACAGGATGAATCAGAAAACAGCTCCATTGGCCCGACCCACCCTTATGACCAGCCTGCAGGGCCTGGTGCCCAGGGGCCTGGCCTCTGCCCAGGCTCTGAAGATAAGGGTCAAGGGGCCAGGCCCCAGAGCCAGGGTCGCACCCCTGCACCCTTCATCCTGGCACCTTGCCCAGCCTCCAGGCCCTTGGCAGCTCCGCAGACCCCTCCTCCCAGGGACCAAGTCAAGGGCTTTCACCGGCCACTTGTCGAGGTTGTGCCTGAGAGAGCGGGAGCCCTGGGCTTGCTCTGGCCTCTGGGCAGCAAGAGCCCACAGGGGTCCTGGGTGTGCCCCCTGCCCTGGCAGCCCCGTGTCCCCCACTCCAG
Seq C2 exon
GCCAGTGAGGACGGCGAGAGTGTGGGCCACTGCCCCTCCTGCCAGAGGCTCTTCATGATTCTGCTTCTCAAGGGCGTGCCCTTCACACTCACCACCGTGGACACCCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015085:ENSBTAT00000020075:1
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134171=GST_N_3=PU(41.1=81.1)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development