GgaEX6045304 @ galGal3
Exon Skipping
Gene
ENSGALG00000005141 | HMCN1
Description
NA
Coordinates
chr8_random:333852-339009:+
Coord C1 exon
chr8_random:333852-333983
Coord A exon
chr8_random:334218-334367
Coord C2 exon
chr8_random:338850-339009
Length
150 bp
Sequences
Splice sites
3' ss Seq
ACTTGTTTGTATACTTTCAGAGA
3' ss Score
7.52
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
Exon sequences
Seq C1 exon
TGCCACCAAATATAGAAGGCCCTGAAGAAGAGTTGGTCATAGAAACAATCAGTAATCCTGTTGCCTTCATTTGTGATGCTACTGGAATTCCTCCACCAACACTGGTCTGGCTAAAGAATGGAAAACCACTAG
Seq A exon
AGAACTCCAATTCTCTAGACGTTCATATTTTTTCTGGTGGAAGCAGGCTTCAGATTGCTCACTCTCAGCTTCTAGACAGTGGGACCTACACATGTATTGCCTCAAATGTAGAGGGAAAAGCTCAGAAAAGATTTGTGCTTTCCGTTCAAG
Seq C2 exon
TTCCTCCTAGTATTGTTGGCTCTGAAATGCCTAGAGAGGTCGGTGTCCTCTTGGGAGAAGGCATCCAGCTAGTATGCAATGCCACTGGAGTGCCAATGCCTGTTGTACAATGGCTTAAAGATGGAAAAACAGTTGCCAGTGACAACTTAGAAAGAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005141-'73-90,'73-88,74-90=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.037
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(46.2=93.3)
A:
PF0767911=I-set=PD(52.7=94.1)
C2:
PF0767911=I-set=PU(53.9=88.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCACCAAATATAGAAGGCCC
R:
TTGTACAACAGGCATTGGCACT
Band lengths:
242-392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]