RnoINT0070100 @ rn6
Intron Retention
Gene
ENSRNOG00000013267 | Helz2
Description
helicase with zinc finger 2 [Source:RGD Symbol;Acc:1306056]
Coordinates
chr3:176741817-176743368:-
Coord C1 exon
chr3:176742280-176743368
Coord A exon
chr3:176742001-176742279
Coord C2 exon
chr3:176741817-176742000
Length
279 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TGACATCATCATCTTTTTAGACC
3' ss Score
7.09
Exon sequences
Seq C1 exon
GGCTAACAGTTTCAGCAGAACAGCTGCCCAGAAACGTTGCTCACAATCCTGAAGGACCTGGCCCTCATCTGACATGGCATCCGTGGGGTGTGGCCTGAGGTCGACCAGCACATCCACCACCAATGGGCTATCCTTGGCTGAACTCTGTGCTAAGGTAGACCTTCACCTGGGCTGCTCCCGCTGTACTGAGTACCTCAATGAGAGCACCTATATTCTACGTGAGGTAGAGCATACCTGCTCCAGGGAGATCTTGCTGGCCCGCTTCAAGCAAGCAGCCAAGAACAAGGTCTGGCGTAAGGTGGGCCTCAGGCCCAGCTTTCCAATACCTGTGCGCTATCAAGTCTGTCGCTATTATAGCCCAGGGTTGGGCTGTAAGCGGCACTGGAACAGATGCACTTTTGCCAGCAGCCCAGAGGAGGCACTGGTCTGGACATTTGAGCTCAAGAACAACCTTACCCGACTGAAACTGAAAGAGGCTGTGCAGGGCACCAGAGCCCCAGATAGGCTGCAGACCCCAGCCGACACCATCCGAGCAGAGTTTGGTGGCCACTTCCAGCTGCTCTGTGCCCTGTGCTTCAAGTGTCGTCCCCCATGCCTCTGCCCCGTGGATTCCAGGGGCCATTGCCCTAAGCACCAAATCTGCCCCACACTCCTTATCCATGTTATAGTTGAGGGCCAAAAGCGACAGTTTGTGGAGGTGCGTCCACTGCCACAAAAAAGGCATCCTTTAAACTACTGCATGTTTGTGGGCCGTGGGGTACCATGCCGCCACGGGGCCTCACGCTGTGGGTATGCACACAGTGCTGTGGAGATGGCTGTGTGGAAGGCTGAGCAGCTGGATGGGCTTCAGAGAGGAGATCTGCTCACATACCCTCTCTTTGGGGAAGACAAACAGAAAGCCAGCCATGGTCAGCCTCCTGCGGTCAAACTATACTGCCATGCCTGCCTGGTCACCTGTAGTTCTCAGGAGGCATTTGAGAACCACTGCTCCTCCCTGGAGCACGCACAGATGGTGGCCTTTGACCAGGTTGTACCCCGGAAGCACCGTGCCCCACCAATGGGGCTCTCCAAGTTCGAGCTCTGCCCCAG
Seq A exon
GTAAGGAGAATTGCATGGAAGTCTAGGCTAGCCTGAGGGATTATGAGGCCCATGAGGCCTGGGACCTGCCTATCATTTCCTGTGCCCTCTGCATGTCAAGTTAGTACTGCAGTAGCCCCTGAAAGAAGGTACCTTGGGCCAGCCCTTGTCCTGGATATTCAGGGTATAGAGAAAATGAAACCCCTATGCAATCCATTCCTGCTCCCCATACAGGCCAGGGTTGGGCTTAGAGGGTTGGACCTCCATGAAGTCCTCCTGCTGACATCATCATCTTTTTAG
Seq C2 exon
ACCTGACCTCTGTGAGTATGGAGAGGTCTGCATCAAGGCCCACTCAAAACAGGAGTTACAGGAGTGGGTTCAGCGGGCACAAGACATGGAGCTGCGAGAACAGGCCGCCTGGCAGGACGGGCTGGTACCTTACCAGGCACGACTTCTTGCAGAATACCGGCGCAGCAGCAAAGAGGTCTTGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013267:ENSRNOT00000017787:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGATGGGCTTCAGAGAGGAG
R:
TTTGAGTGGGCCTTGATGCAG
Band lengths:
301-580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]