BtaINT0039272 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013533 | CLIC1
Description
Bos taurus chloride intracellular channel 1 (CLIC1), mRNA. [Source:RefSeq mRNA;Acc:NM_001015608]
Coordinates
chr23:27396271-27396659:+
Coord C1 exon
chr23:27396271-27396396
Coord A exon
chr23:27396397-27396552
Coord C2 exon
chr23:27396553-27396659
Length
156 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
3' ss Seq
TTTCTCCCATTGGCTTTTAGGTA
3' ss Score
11.05
Exon sequences
Seq C1 exon
GCGGACTGAGACGGTACAGAAGCTGTGCCCAGGAGGGCAGCTCCCTTTCCTGCTGTATGGCACTGAAGTGCACACAGATACCAACAAGATTGAGGAATTTCTGGAGGCAGTGCTGTGCCCTCCCAG
Seq A exon
GTAGAGGGGAACTTGGAATGAGAAGTGGGGGAGCTGGGAGACTCTGGGAAAGGGGTTGAAGAAATGAAAAACAAGAGATGGTGGTGGGGCTAGGGCAGGGGAGCTGAGGCTCCTCCTCGGAAGATATCTTATCCAGTTTCTCCCATTGGCTTTTAG
Seq C2 exon
GTACCCCAAGCTGGCAGCTCTGAACCCTGAATCCAACACAGCTGGGCTGGACATATTTGCCAAATTCTCTGCCTACATTAAGAATTCAAACCCAGCACTCAATGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013533:ENSBTAT00000017995:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(57.7=95.3)
A:
NA
C2:
PF134101=GST_C_2=PU(5.6=13.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGACGGTACAGAAGCTGTGC
R:
TGTCATTGAGTGCTGGGTTTGA
Band lengths:
226-382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]