BtaALTA0007339-2/2 @ bosTau6
Alternative 3'ss
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
chr23:27397095-27397160
Coord C2 exon
chr23:27397161-27397276
Length
66 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
ACCTGGAGAAGGGGCTCCTGAAAGCCCTGAAAGTATTAGACAATTACCTGACATCCCCCCTCCCAG
Seq C2 exon
ATGAAGTAGATGAGACCAGTGCTGAGGATGAGGGGATCTCTCAGAGGAAATTTCTGGATGGCAATGAGCTCACTCTGGCTGACTGCAATCTGTTGCCCAAGCTCCACATAGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013533-6-6,6-5-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
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 Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCTCTGAACCCTGAATCC
R:
AGTCAGCCAGAGTGAGCTCAT
Band lengths:
178-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development