BtaEX6040245 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000020772 | HMHA1
Description
histocompatibility (minor) HA-1 [Source:HGNC Symbol;Acc:HGNC:17102]
Coordinates
chr7:45188362-45188966:+
Coord C1 exon
chr7:45188362-45188445
Coord A exon
chr7:45188577-45188681
Coord C2 exon
chr7:45188794-45188966
Length
105 bp
Sequences
Splice sites
3' ss Seq
ACACCCTGTTTCCTGCTCAGAGG
3' ss Score
8.01
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
Exon sequences
Seq C1 exon
GTGGGCGGGGCCACCAGGTGCACAAGTCGTGGCCCATCTCCATCTCCGATTCGGAGGCCAGTCTGGACCCCAGCCCTGGCTCAG
Seq A exon
AGGACTTTAAGAAGTTTGAGCGTATGTCTTCCTGTGGCACCATGTCGTCCAACGAGGAGCTGGCCGACCAGGAGGGCAGTGCAGGGGCATCAGCCTTTGATCAGG
Seq C2 exon
CTGACCTCAATGGCATGACTCCAGAGCTGCCTGTGGCTGTGCCCAGCGGGCCCTTCCGCCACGTGGGGCTGTCCAAGGCGGCCCGGACCCACCGGCTTCGGAAGCTCCGCACACCGGCCAAGTGCCGGGAATGCAACAGCTACGTGTACTTCCAGGGCGCCGAGTGTGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020772-'16-18,'16-17,17-18=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.806 C2=0.241
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0013017=C1_1=PU(57.1=48.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGGTGCACAAGTCGTGG
R:
CTCCTCACACTCGGCGCC
Band lengths:
244-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]