BtaALTD0000220-2/2 @ bosTau6
Alternative 5'ss
Description
Bos taurus major histocompatibility class I related protein (MIC1), mRNA. [Source:RefSeq mRNA;Acc:NM_001127317]
Coordinates
chr23:27725123-27725654:-
Coord C1 exon
chr23:27725595-27725654
Coord A exon
chr23:27725376-27725594
Coord C2 exon
chr23:27725123-27725251
Length
219 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
ATAATAAGGTCCTTTTTCAGGAA
3' ss Score
6.34
Exon sequences
Seq C1 exon
AGCCCCCAGCCGTGAATGTGACCTGCAGCCAGGACTCAGAGGGCATGGTCCACCTCACAG
Seq A exon
GCAAGGCTTTTGGCTTCTTTCCCCGCAGTATCTCAGTGGTCTGGTTTCGGGATGAGGAACCCATGAGCTGGGACGCCCAGGAGTCTGGGGATGTCCTGTCTGATGGGAATGGGACCTACTACACCTGGGAAACTGTAAAAATTCCCCAAGGAGAGGAACAGTGGGTCAAGTGCATTGTGGAACACAGCGGGAATCACAGTTCACACCTCGCACCCTTGG
Seq C2 exon
GAAAGACCCTGGTGCACCAGAGATCACGATGGATCGTGAGCATTCCTGTTGCTGTTGTTTTTATCATCGGATTTTGTGTCTATTGTTATATTAAGAAGAGGAAGACAGCATCAGCTACAGGGAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010166-4-5,5-5-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.286 A=NA C2=0.068
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion 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:
AGCCCCCAGCCGTGAATG
R:
CTGGCCTCCCTGTAGCTGAT
Band lengths:
189-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development