GgaALTA1005972-5/6 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000024372 | BFIV21
Description
MHC BF2 class I precursor [Source:RefSeq peptide;Acc:NP_001026509]
Coordinates
chr16:59835-60553:+
Coord C1 exon
chr16:59835-60098
Coord A exon
chr16:60328-60474
Coord C2 exon
chr16:60475-60553
Length
147 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
CCTGCCCGGCTGTGTTTCAGGGT
3' ss Score
9.6
Exon sequences
Seq C1 exon
AGCTCCATACCCTGCGGTACATCCGTACGGCGATGACGGATCCCGGCCCCGGGCTGCCGTGGTTCGTGGACGTGGGGTACGTGGACGGGGAACTCTTCATGCACTACAACAGCACCGCTCGGAGGGCTGTGCCCCGCACCGAGTGGATAGCGGCCAACACGGACCAGCAGTACTGGGACAGAGAGACGCAGATCGTACAGGGCAGTGAGCAGATTAACCGCGAGAACCTGGACATACTGCGGCGGCGCTACAACCAGACCGGCG
Seq A exon
GGTCTCACACAGTGCAGTGGATGTCCGGCTGTGACATCCTCGAGGATGGCACCATCCGGGGGTATCATCAGGCAGCCTACGATGGGAGAGACTTCGTTGCCTTCGACAAAGGCACGATGACGTTAACTGCGGCAGTTCCAGAGGCAG
Seq C2 exon
TTCCCACCAAGAGGAAATGGGAGGAAGGAGGTTATGCTGAGGGGCTGAAGCAGTACCTGGAGGAAACCTGCGTGGAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024372-2-6,2-5,2-4,2-3,2-2,2-1-5/6
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(50.0=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(49.4=94.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGGGGAACTCTTCATGCAC
R:
CGCAGGTTTCCTCCAGGTACT
Band lengths:
253-400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]