RnoINT0070104 @ rn6
Intron Retention
Gene
ENSRNOG00000013267 | Helz2
Description
helicase with zinc finger 2 [Source:RGD Symbol;Acc:1306056]
Coordinates
chr3:176738085-176740455:-
Coord C1 exon
chr3:176739814-176740455
Coord A exon
chr3:176738869-176739813
Coord C2 exon
chr3:176738085-176738868
Length
945 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTGCCTCACCCTTCCTACAGCGC
3' ss Score
10.78
Exon sequences
Seq C1 exon
GCTGGCTATGAAGGGCCAGGTGTCCCTGAAGACAGCACTGGAGACACCAGCACTGGGCATGCTCTTTGCACCACCAGGGGCCCTCTATGCCGAGGTCCCCTTCCCCTCCTCTCTGTTGCCAGACACTGACCAGGGCTTCCTGATGAGCCGAGCAGTCAGCACAGCCCTTGTGGCTCCTGCGCCTGCGCCGGACAGTAAAGTATACCAAGTGCGGCTGGAGGCACGGGCCAGTTCAGAGCATGCACTGTGGCTGCTGTTACCAGCACGATGCTGTATGGCTTTGGGGCTGCAGGCACAAGACAGCCCTGTCTTGGAGGTGCAGTTCCAGATCGACCCCCTGATCTTCCGGTTCTGGCATCGGGCAGTTGATGCACTGCCTGAGGTGTGCCTGGTTGTTCCTGACCTGCCCGCCTGCACCCTGCCCCACCCCTGGCCCACCCCGCCCTCATTCCGTGGCAATCACAAACAGAAGCTGGCTGTGGGGCTCATCGCGGGCAGAAGACCGGAGGGCTCAAAGCACATTCCGCCGCTGCTCATCTATGGCCCCTTCGGCACTGGCAAGACCTACACGTTGGCCATGGCAGCCCTTGAGGTTGTCCAGCAGCCCCACACCAAGGTGCTCATCTGCACACACACCAACAG
Seq A exon
GTGAGCCCAGAGTTCCTTCCGGGTTGCTCACCGCTGCCCTGTCTCTCAGAGCATCCATCTGATTCCTATGGAGTTGTGAGTGCCTTTCCACAAACCCTAGACCAAGGAGAGTGTTGTAGTAGTGATGTGATTTGGCCTACCCCATGTTTCCTGGGCAAGGTTTTTTTGTTTTAAATATAGAAACAGGCTATTCAAGAAGTTCCTCTTTTGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCCTGCCTAGGAAGCGCAAGGCCCTGGGTTCGGTGCCCAGCTCCGAAAAAAAGAAAAGAAAAAAAAAAAAGTTCCTCTTTGATGATTGTGCGGGTTTTTTATTTTTATTTTTTTTATTTTTTATTTCCCTAATAACACATATTACAGGCACGGAGTCCTCCTTTAGCCCAAAGTATGGGGTGGAAGGAAGAGCCCAGGACAATAGCCACGTGTCCTGAGCCAATTTCTAGGCTGAGCTGGAGAGTGGCAAGGCTGCTGTTGCTTACCTGGAAGACCCTAGGCAGTACTTCCTTGGCCTCTTGACTCTCTAGCTCTGCTCCTGGGGGTCAGGCCACCAATTCTTGTTGCCAAAGCTTGCAGTATCCGGGAGCTGTATTCAGGATTAGTGTCAGCCCCTAGCGATGGGTGATCTCAGGCCACTAGCTATCTCCCCCCACCACCCCTTGCCCTCAGTTAAGAGATTGCCTTCTCTAAGCTATCCCTGGCTACCCAGGCTCTCCAAGTCTTGCCCCACTTATCTTCAAGCTCTGACCTTCTCTATGCCTTTGCTGTTTGTCCTGTTTGAGAAAATTTGAGTCCCTGGGCAAGACTCCCCCTTCTGTCTGCCTTATGAGTGTCCCTGGCATCCAGGCAAGGCTGCACACGAGTTTTAACCAGCAGCCTGAGTCCTAAAGCAGCAGCCCATAGTGCCTCACCCTTCCTACAG
Seq C2 exon
CGCTGCAGACATCTATGTCCGGGAGTATTTCCACGGCTATGTCAACAGTGGCCACCAAGAAGCGGCTCCACTCAGGGTGATGTATGCAGATCGTCCTCCAAGACAGACGGATTCAACCACATTGCAGTACTGCTGCCTAACTGAGGACCGCCAGGCCTTTCGCCCACCCACATTCCCAGAGCTGTTACGACACCGTTTGGTGGTCACCACCACCTCTCAGGCTCGTGAGCTCCAGGTGCCAGCCGGCTTCTTCTCCCACATTTTCATTGATGAGGCAGCCCAAATGCTGGAGTGTGAGGCCCTTATCCCACTCTCCTATGCCTTGACGCTGACCCGTGTAGTGCTGGCAGGGGACCACATGCAGGTCACACCTAGGCTCTTCAGCGTGCCCAGGGACAAGGCAGCAGGGCACATGCTGCTGCACCGCCTCTTCCTGTACTACCAGCAGGAGGTACACAAGATCGCCCAGCACAGTCGCATTGTCTTCCACGAGAACTACCGTTCGACGGCAGCCATCATCAACTTTGTCTCCCGTCATTTCTATGTAGCCAAGGGCAACCCCATCCAGGCCAGTGGCAAAGTCCCACGTCACCCCCAACACTACCCTCTCATGTTCTGCCATGTGGCAGGCAGCCCTGAGCAAGACATGTCCAGGACATCCTGGCTTAACTCAGCTGAGGTCACACAGGTCGTGGAGAAGGTGCAGGAGATCTACAACACTTGGCCTCATTGCTGGGGACCCCGGGAGCAGAGACACATCTGCGCTGTCTCTCATGGTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013267:ENSRNOT00000017787:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.050
Domain overlap (PFAM):
C1:
PF130861=AAA_11=PU(52.5=28.8)
A:
NA
C2:
PF130861=AAA_11=PD(46.6=21.0),PF130861=AAA_11=WD(100=32.1),PF130871=AAA_12=PU(61.1=47.3)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCTTCCGGTTCTGGCATCG
R:
CCACTGTTGACATAGCCGTGG
Band lengths:
354-1299
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]