BtaINT0039276 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010948 | CLIC2
Description
Bos taurus chloride intracellular channel 2 (CLIC2), mRNA. [Source:RefSeq mRNA;Acc:NM_001081727]
Coordinates
chrX:38511788-38512148:+
Coord C1 exon
chrX:38511788-38511897
Coord A exon
chrX:38511898-38512022
Coord C2 exon
chrX:38512023-38512148
Length
125 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTTATTTTCAATAATCATAGAAA
3' ss Score
4.03
Exon sequences
Seq C1 exon
GCTGGAAGTGATGGGGAGAGTATTGGAAATTGTCCCTTTAGTCAACGCCTTTTTATGATCCTCTGGCTTAAAGGAGTTAAATTCAATGTGACTACTGTTGACATGACCAG
Seq A exon
GTAAGAGAAATCAGGACATGTTTTATTCTGGGGGTTAAAATCAGTAGACACCGATACAATCTTGGTGTTTGCATAATATGTACTTTATCTAGAAGCCTAACTCTGCTTATTTTCAATAATCATAG
Seq C2 exon
AAAGCCCAAAGAGCTGAAGGACTTAGCCCCAGGCACCAATCCGCCCTTCCTGGTATATAACAAGGAGTTGAAAACAGACTTCATTAAAATTGAGGAGTTTCTAGAGCAGACACTGGCTCCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010948:ENSBTAT00000014537:2
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=0.140
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PU(41.1=81.1)
A:
NA
C2:
PF134171=GST_N_3=FE(57.5=100),PF134101=GST_C_2=PU(16.0=53.5)
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:
GCTGGAAGTGATGGGGAGAGT
R:
TGGAGGAGCCAGTGTCTGC
Band lengths:
234-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]