BtaEX6040240 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000020772 | HMHA1
Description
histocompatibility (minor) HA-1 [Source:HGNC Symbol;Acc:HGNC:17102]
Coordinates
chr7:45189897-45191184:+
Coord C1 exon
chr7:45189897-45190123
Coord A exon
chr7:45190207-45190417
Coord C2 exon
chr7:45191076-45191184
Length
211 bp
Sequences
Splice sites
3' ss Seq
TGCACCCTACAACCCCCCAGGAT
3' ss Score
5.11
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
Exon sequences
Seq C1 exon
CTCCCTGAGCCGCTCATTTCCTTCCGCTTCTACCATGAGCTTGTGGGGATGGCCAAAGACAGTCTGAAGGCCGAGGCCGAGGCCAAGGCAGCATCTCGGGGTCGGCCGGATGCCACAGAGAGGGAGGCTGCAGCCATGGCCATGGCGAGCCGGTTGCGGGAACTCCTACGGGACCTGCCTCGGGATAACTGGGCCACACTGCGGTACCTGATGCGGCACCTGCGCAG
Seq A exon
GATCGTGGAGGTGGAACAGGACAACAAGATGACACCAGGGAACCTGGGCATTGTGTTTGGGCCCACGCTGCTGCGGCCCCGGCCCACTGAGGCCACGGTGTCCCTTTCCTCCCTGGTGGACTACCCCCACCAGGCCTGCATCGTGGAGACCCTCATCACCCACTTCAGCCTGGTCTTCAAGGAGGAGCCCGAAGAGGCCCCAGGGGGCCAG
Seq C2 exon
GATGGGGTATCCAGCCAGCGACCCGAGGTGGTGGTCCAGGCACCGTACCTGGGGGGCAGCGGGGGTGCAGCCTTTCCCTTGACAGAGGAGGCTGAGGATGGGGTCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020772-'21-24,'21-23,22-24=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=0.239 C2=0.838
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(43.4=100)
A:
PF0062022=RhoGAP=PD(18.5=45.1)
C2:
NO
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:
CGCTCATTTCCTTCCGCTTCT
R:
CTCTGTCAAGGGAAAGGCTGC
Band lengths:
304-515
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]