BtaINT0039273 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013533 | CLIC1
Description
Bos taurus chloride intracellular channel 1 (CLIC1), mRNA. [Source:RefSeq mRNA;Acc:NM_001015608]
Coordinates
chr23:27396553-27397276:+
Coord C1 exon
chr23:27396553-27396659
Coord A exon
chr23:27396660-27397094
Coord C2 exon
chr23:27397095-27397276
Length
435 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
AACTCCCTTCTCTTGCACAGACC
3' ss Score
7.49
Exon sequences
Seq C1 exon
GTACCCCAAGCTGGCAGCTCTGAACCCTGAATCCAACACAGCTGGGCTGGACATATTTGCCAAATTCTCTGCCTACATTAAGAATTCAAACCCAGCACTCAATGACA
Seq A exon
GTGAGTCTTGTGGGTCAGAGGCCTGGGTTCTAGGAGGAATGGAAAAGATCTAGGGATTAGGGACACCTGGACATTCAGATATCAGGGAGATGGAGCTGATATTGCAAACCTTACTTAAATTAAAAAATAATAGCAACTCTATAGATCCAGATGACCTGAGTACAAATTCTAGTACCTGTGAGCCTTTGAGGAATTCATTTCACTTCTCTGGAAATCTATTTTCAGATCTATAAAATGAGGATAACAATACCTATTTCCCTGGTTGATGTGAGAATTAAATGAGTTTTTGTATGTAAATTGCATAGAAGAGCACAGAGAAAATGAAACACATTAGTGTTAGCTATTATTGTTTTGGACTTTCCTCATCCCCACCATGGGCTTTCTTGGACTATGTCGATCTTCTGATGTTCTTACCAACTCCCTTCTCTTGCACAG
Seq C2 exon
ACCTGGAGAAGGGGCTCCTGAAAGCCCTGAAAGTATTAGACAATTACCTGACATCCCCCCTCCCAGATGAAGTAGATGAGACCAGTGCTGAGGATGAGGGGATCTCTCAGAGGAAATTTCTGGATGGCAATGAGCTCACTCTGGCTGACTGCAATCTGTTGCCCAAGCTCCACATAGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013533:ENSBTAT00000017995:4
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=0.148
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=PU(5.6=13.5)
A:
NA
C2:
PF134101=GST_C_2=FE(66.7=100)
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:
GTACCCCAAGCTGGCAGC
R:
GTACTATGTGGAGCTTGGGCA
Band lengths:
287-722
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]