BtaINT0039271 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013533 | CLIC1
Description
Bos taurus chloride intracellular channel 1 (CLIC1), mRNA. [Source:RefSeq mRNA;Acc:NM_001015608]
Coordinates
chr23:27395972-27396396:+
Coord C1 exon
chr23:27395972-27396081
Coord A exon
chr23:27396082-27396270
Coord C2 exon
chr23:27396271-27396396
Length
189 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
ATGCCTGGTCTCTTCTCCAGGCG
3' ss Score
9.24
Exon sequences
Seq C1 exon
GCTGGCAGTGATGGGGCCAAGATTGGAAACTGCCCCTTCTCCCAGAGACTATTCATGGTGCTCTGGCTCAAAGGAGTCACCTTCAATGTCACCACTGTTGACACCAAGAG
Seq A exon
GTAGGCCCACTTCTGTTCCTCTAAACACCTCTTAGGTGCACAGGTGCACACTCATTCACCTGAGTCCTTCCATCCTGAACCATCCCCCCCATCCCCCCATCTGGAGCCCCTCTCCCGCCTCCCTCCATCTCCCCTTTCTTGGTCTCCCTAACGCCCTTTACCAGTCCTTATGCCTGGTCTCTTCTCCAG
Seq C2 exon
GCGGACTGAGACGGTACAGAAGCTGTGCCCAGGAGGGCAGCTCCCTTTCCTGCTGTATGGCACTGAAGTGCACACAGATACCAACAAGATTGAGGAATTTCTGGAGGCAGTGCTGTGCCCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013533:ENSBTAT00000017995:2
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=0.023
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PU(40.8=78.4)
A:
NA
C2:
PF134171=GST_N_3=PD(57.7=95.3)
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:
GCAGTGATGGGGCCAAGATTG
R:
CTGGGAGGGCACAGCACTG
Band lengths:
232-421
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]