GgaINT0127313 @ galGal3
Intron Retention
Gene
ENSGALG00000021439 | HELZ
Description
NA
Coordinates
chr18:7203698-7204414:+
Coord C1 exon
chr18:7203698-7203876
Coord A exon
chr18:7203877-7204295
Coord C2 exon
chr18:7204296-7204414
Length
419 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
CTGCTACCTCTGTCTTACAGGTT
3' ss Score
10.86
Exon sequences
Seq C1 exon
GGTATATTTCAGAAATCGCTGGGTAAAGACTGTCCACCCAGTTGTGCATCAGTACTGTTTGATTTCAAGCACACATTCCACCTTTCAGATGCCACAGAAAGAAGATATTCTTAAGCAACGAGTAGTAGTTGTTACTTTAAATACATCACAGTATCTGTGTCAACTGGATCTTGAACCAG
Seq A exon
GTATGATAGCTGTAAACAAGATGTGTCTGTAAGGTGCTTTGAGAGGAATCCTTGTCCTTCCAGCATGAGTGACAAGTGTTCTTCTGTTCCCTACTCAGTTCTTTCAACAGCTAAAAAAAAAGTTTGGATTTTTTTTTTGTGAAAAACCATTCAGTAAAAAGCTCTAAAATTAATGGCATTCAAGTTAGCTTTTTGCCTCCCTATTTTTTTTTCCCTTGTATAAATAAAGAAGGAAGATGTATTGTGTATGAACTGGTGTTTCTGAGATCCATGAAGGAAAACTCTATTTGAGAATTTTTTTTCTAGTTTTGATTACTATTACAATACAGAACTTTTTAGTACAATTTCTTATATTGTTATCACTGTTTATTTTATCATATCTCTAGTTTTGCTTATTTGCTGCTACCTCTGTCTTACAG
Seq C2 exon
GTTTTTTTACACACATTCTGTTAGATGAAGCTGCGCAGGCTATGGAGTGTGAAACTATTATGCCTCTAGCATTAGCTAATAAAAACACGAGAATTGTCTTGGCTGGAGACCATATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021439:ENSGALT00000005876:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130861=AAA_11=PD(28.7=57.4),PF130861=AAA_11=PU(44.2=62.3)
A:
NA
C2:
PF130861=AAA_11=FE(45.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTATATTTCAGAAATCGCTGGGT
R:
TGCATATGGTCTCCAGCCAAG
Band lengths:
297-716
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]