DreINT0012524 @ danRer10
Intron Retention
Gene
ENSDARG00000012600 | HELZ2 (2 of 3)
Description
helicase with zinc finger 2, transcriptional coactivator [Source:HGNC Symbol;Acc:HGNC:30021]
Coordinates
chr2:42102331-42102984:-
Coord C1 exon
chr2:42102763-42102984
Coord A exon
chr2:42102488-42102762
Coord C2 exon
chr2:42102331-42102487
Length
275 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGT
5' ss Score
11.37
3' ss Seq
GTTTTTGTGTTCTGCCACAGGTT
3' ss Score
10.53
Exon sequences
Seq C1 exon
CATGAAGAGATCTGCAAATTCCCATCAGAGGCATACTATAACGATATGCTGAAAACTGTTGTGCGTGAACGGACAAGCGTGCTGAATGCTGAAACTGAGGGAAGAAGACAAAGCAAGCGCATTCTGTTTGGAGATATACGTGGAGAAGAAATCGGTTTAGTTGTTTCAACTGCACGAGGAAACGAGAACTCAAAAGCTAACTTTGATGAAGTTAAGAAAGCG
Seq A exon
GTAAGTAAAAGCATCAAAAAATACTATTAAAAAAAAAATATATATATATATATATATATATATATATATATATATATATATATATATATACCCTAAATATAAACCAAACACTATAGCAAAGCACAAAGGCATCTGTGATTGTGTAACTCAAAATTGACCTAATTGTTACTGTAAATATTTTAACCCTTGTTGGTTGACATAGCACCTTATATTAGAGATATATTAGAGTTAGAAGCCAAGATGTGCTTAAGGGATGTTTTTGTGTTCTGCCACAG
Seq C2 exon
GTTGAGATTTGTATTCAGCTGGTAACAGTGGGCCGTGTGAGACCAGAGGACATTGCCATTCTATCACCCTATAATGCACAGGTGGCTCAGATCAGAGAGAGACTGTCTGATTTCGAATTGAAGGGATTCACTGTCACCACCATTACAAAGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012600:ENSDART00000131278:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(35.1=100)
A:
NA
C2:
PF130871=AAA_12=FE(25.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACGGACAAGCGTGCTGAAT
R:
TGGTGGTGACAGTGAATCCCT
Band lengths:
298-573
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]