BtaINT0039283 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015085 | CLIC3
Description
Bos taurus chloride intracellular channel 3 (CLIC3), mRNA. [Source:RefSeq mRNA;Acc:NM_001100301]
Coordinates
chr11:106230231-106230588:+
Coord C1 exon
chr11:106230231-106230337
Coord A exon
chr11:106230338-106230412
Coord C2 exon
chr11:106230413-106230588
Length
75 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
ACCGGGCCCCTCGCTCTCAGCTC
3' ss Score
7.69
Exon sequences
Seq C1 exon
ATTCCCCAGCTTGGCGCCCAGATACAGGGAGTCTACCGCAGCGGGCAACGACGTCTTTCACAAGTTCTCCGCCTTCATCAAGAACCCAGTGCCCGCACAGGACGACG
Seq A exon
GTGAGGGTCTGGAGGCGCGGCGAGGGTGGGGGGAGAGGTGCCCTGGCCGGTCCTCACCGGGCCCCTCGCTCTCAG
Seq C2 exon
CTCTGTACCAGCAGCTGCTGCGCGCCCTCGCCAAGCTGGACAGCTACCTGCGCGCGCCCCTGGAGCACGAGCTGGGCCGCGAGCCGCAGCTGCGCGAGTCCCGCCGCCGCTTTCTGGACGGCGATCAGCTCACGCTGGCCGACTGCGGCCTGCTGCCCAAGCTGCACGTCGTGAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015085:ENSBTAT00000020075:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.189 A=NA C2=0.068
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(27.5=100)
A:
NA
C2:
PF134101=GST_C_2=FE(44.3=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:
CTCCGCCTTCATCAAGAACCC
R:
CTGATCGCCGTCCAGAAAGC
Band lengths:
169-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development