GgaEX6045338 @ galGal3
Exon Skipping
Gene
ENSGALG00000005141 | HMCN1
Description
NA
Coordinates
chr8_random:244228-256320:+
Coord C1 exon
chr8_random:244228-244372
Coord A exon
chr8_random:248127-248248
Coord C2 exon
chr8_random:256045-256320
Length
122 bp
Sequences
Splice sites
3' ss Seq
ATACCTTTTTCTTTCTCCAGAGA
3' ss Score
9.6
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
Exon sequences
Seq C1 exon
ATGCTCCAAAAGTTACAATGCCCAACAAGACTCCAGGATATTACTCACAGCCAGGGTCTGTTCCTTGCCATGTAGAAAGTCTTATACCTTTTACTCAACATTTTACTAAAAATGGAGTAAAACTAGGAGTGGATCAGTTATTCAA
Seq A exon
AGAATCATCAAGTATGAGCTGGGATATCAACCGAGTCTCCTTGTCTGATGAAGGTTTCTATGAATGTATTGCAAACAGCACTGCAGGAACCGGACATGCACAGACTTTTCTGGATGTATCAG
Seq C2 exon
AGCCTCCACCTGTGATTCAGGTTCCTAACAATGTCACAGCTGTCCTTAGGGAAGGAGCCATCCTGACCTGCCTGGTTGTAAGCACCATGCGCTACAATCTTACCTGGCAGAGAAATGGCAGGGATGTGAGGCTCCAGGAGCCCCTACGGATGAGAGTGATGAGCAACCTGTCTTTAGAGGTGAAAGCAGTACAGTTCACAGATGCTGGCAAGTACAACTGCGTAGCTTCTAACAAGGATGGCTCTACCACAGCGTCTGTCTTCCTTACAGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005141-'14-21,'14-16,15-21=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=0.048 C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(40.3=55.1)
A:
PF0767911=I-set=PD(58.2=92.9)
C2:
PF0767911=I-set=WD(100=95.7)
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:
TGCCCAACAAGACTCCAGGAT
R:
ACATCCCTGCCATTTCTCTGC
Band lengths:
254-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]