GgaEX6045337 @ galGal3
Exon Skipping
Gene
ENSGALG00000005141 | HMCN1
Description
NA
Coordinates
chr8_random:248127-264771:+
Coord C1 exon
chr8_random:248127-248248
Coord A exon
chr8_random:256045-256320
Coord C2 exon
chr8_random:264627-264771
Length
276 bp
Sequences
Splice sites
3' ss Seq
ATTCTGTTCTTTTCATGCAGAGC
3' ss Score
9.08
5' ss Seq
AAGGTAACA
5' ss Score
8.92
Exon sequences
Seq C1 exon
AGAATCATCAAGTATGAGCTGGGATATCAACCGAGTCTCCTTGTCTGATGAAGGTTTCTATGAATGTATTGCAAACAGCACTGCAGGAACCGGACATGCACAGACTTTTCTGGATGTATCAG
Seq A exon
AGCCTCCACCTGTGATTCAGGTTCCTAACAATGTCACAGCTGTCCTTAGGGAAGGAGCCATCCTGACCTGCCTGGTTGTAAGCACCATGCGCTACAATCTTACCTGGCAGAGAAATGGCAGGGATGTGAGGCTCCAGGAGCCCCTACGGATGAGAGTGATGAGCAACCTGTCTTTAGAGGTGAAAGCAGTACAGTTCACAGATGCTGGCAAGTACAACTGCGTAGCTTCTAACAAGGATGGCTCTACCACAGCGTCTGTCTTCCTTACAGTACAAG
Seq C2 exon
TAGAACCACCTAGGATTGTCATTTCACCTAAGGATCAGACTTTTGTAGAAGGCTCTGAAGTGTCAATCAGATGTTCTGCAACAGGTTATCCAAAGCCAACAGTAGTTTGGACACACAATGAAATGTTTATTATTGGTTCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005141-'15-23,'15-21,16-23=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(58.2=92.9)
A:
PF0767911=I-set=WD(100=95.7)
C2:
PF0767911=I-set=PU(52.3=91.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATCAAGTATGAGCTGGGATATCA
R:
ACATTTCATTGTGTGTCCAAACT
Band lengths:
244-520
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]