RnoINT0070107 @ rn6
Intron Retention
Gene
ENSRNOG00000013267 | Helz2
Description
helicase with zinc finger 2 [Source:RGD Symbol;Acc:1306056]
Coordinates
chr3:176733601-176737708:-
Coord C1 exon
chr3:176734027-176737708
Coord A exon
chr3:176733873-176734026
Coord C2 exon
chr3:176733601-176733872
Length
154 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
CCCCTCCTTCCCTCCCCTAGCCG
3' ss Score
10.17
Exon sequences
Seq C1 exon
GGCGTGAGTTCCGGGTGGTGGTACTGAGCTCTGTCCACAACCGAAACAGTCTGCTCAGCCCTGGGGCACCAACCTCAGAGTTCTTTACTGAGCCCCGTGTGCTGAACACAGTCATGACCCGTGCCCAGTCTCAGCTGGTGGCTGTGGGAGACGCCGTGGCTCTCTGTTCCTCTGGAGCCTGCAGAAAGCTCTGGAAAAACTTCATCCGTGAGTGCATAGAGCATCATAGCATCTTCCCAGAGGATCTGTCGCTGGAGCAGATAGAGCAGGGTGTGGCCCAGAGACAGAACTGGGCCTCGTTGATGCTCAGAGCTTGGGACACAGAGGCGGAACACAAACCCACTGCACAGGACCTCCAAAGGCCCATAGCTGAAGGGACCATGGTCACAGTGAAGGCAGAGACTAGAGCCAGGGCAGCAGCCACAGCACAGACCGAAGCAGTAGCAGCAGGGGGCACAGCAAGAAGGAACTCAGCCTCTACAGATGCAGCCGCAGAAGTGTCCACCCTGGAAGGGTATGAGGAAGACTCCGAGTCTGACTTATGGCCCTCCGACTGGGAGCTCAATGCTGATGATGCCATCCTGAAGGAACTCCTAGATGAGAGCCGGCAAATGACTGTGACTGTGAGGGAGGACGGACTTCTGGACACCATGGTTTGCCCTGCATCCTCACAAAAGGCCCGACAATACATAAACCTACCCTCATCTGCGCTGCGGAAGTACCTGCGTCTAGACCCCAAACAATACCGCCGCTGCAGCTTCCTGCAGGAGACCTTTGAGAGAGCATTGGCCACTCCACTGGATGACATGGCCTCTAGCCCTATCCAGGTCAGGGGTCGTCTGAACTGTGGGATGGCCTTCACAGGGGATGAGGTGCTAGTACAGATCCTGGGACCAGCAGTCGATGACAAGAGCATCCCTGGAAGCCTGCTGGGTCGTGTGATGGGCGTGCTGAAGAGGAGGCGGCGTGAACTGGCCTTCGTGTGTCGGATGGATGAGTGGGACCCCCACATTATGATCCCCATCAATAGTTCTGTGACTAAGATTTTTGTGGCAGGGTTGAAGGACCCACAGCAAGTTCCCATCCACTGCCTCATTGAAGGCAAGGTAAAGCATGTGAGGCACGAGACTCTCAAGCGGGAGGACCGGAGCACCCGACTTTTCTGGGTCCGCATCGTCCTTTGGCGGGAACGTTTCTACTATCCACTAGGCATTGTGCTGGAGGTGCTGCCCAAGGCTGTCACCTGGGAACAGGGCCTTCATATCCTTGACCTAGAGCATGGCCTGAAGGCCCACACACCAGACCCAGCTTCTGTTTCCAAGGCTTTGCAGAAATACCACTCAGAGATAGACATGGCCGCTAGTCACCGAGAGGACTACCGCCGCTTCCTGACCTTCACTGTGGACCCCCAGGGTGCCTGCAACCTCGATGACGCTCTTAGTGTCCGGGACCTAGGCCCAGTGTATGAGGTGGCAGTGCATATTGCTGATGTGGCCAGCTTGGTGCCCAAGGATGGGGCGCTGGATGTGGAAGCCCGCCAGCAGGGCACTGTGTTCTATGCCCCCAGCAGGGAGCCAGTTCTCATGCTACCCGCCAGCTTGTGCCAGGAGGCGCTCAGCCTTCTACCAGGTCAGGACCGCCTTGCCATTTCTCTCTTCCTCACCATGGAGAAAGGTGGTGGTGGCCAGATCAGGAGTCTGCGATTTGCACCCTCCATAGTCCGCTCTGACCGCCAGCTGTCGTACGAGGAAGCCGAAGAACTGATCAAGAGACACCCTGGGGCTGGCCTGAAGCTACCAGCCCACCTGGACTCTGTGGAGGCCTGCGTTGTGGCTGCCTGCTACTTCTCTTGGATGTTACGTCGTCAACGCCTCCCAGCTGACTGTTACTATGAGCCGCCAGATGAGGACAGTGTGCTGGGCTTCCGCACAGCCCACATCATGGTCCAAGAGTACATGATCCAGTTTAACAGCCGTGTGGCCGAATTCCTTGTGGGCGATAAGCACACACAGACGCTCACACCACTAAGGTGGCAGCCCACACCCAGTAGGCAGCAGCTTGACAGTGTTTTCAAGAAGCACAGAGGACTGGTGCCTCTGTCGCTGCACCTGTGCCACCACTCGAACACCCACTATACCCCCAACAAGCGGCTGTACCTCCTGACTTCCCTCTGGAAACAAGTGCAGCTTGCAGCTGGTACTCGGGACTACAGCCAGATGGTGGACCTTATTGCTACAGAGGACATGCACCCTTCGCTGGCTCCTGCTTGCCTGGACTTCCGAAGGGCTCTAGGCCGCTCTGTGTTTGGTCGCTCCAGCCAGGGTAGGCAGCGACCTGCTGGCCACTACTCACTGCAGGTGGATTGGTACACATGGGCATCCTCACCCATCCGTAGGTATCTGGATGTGGTGCTGCAGCGGCTAATCCTGCTGGCACTAGGCCACAAGAGCTCTACATATTCTAACAGGGACATCGATGGGCTCTGCCAGGACTTTAGTCGCCAGTATGCGTGTGCCCAGAGCTACCAACGGCGGGCCTGCAGCCTGCACCTCGCCATCCAGCTCAAGACCCAGCCTCAAAACAAGCTGGGCTTTGTGGTGGATGTCGAGACGGGTGCCCGCTGCTTCAAAGTGCTTTTTCCTATAAATCGGGAAACCCTGCCTGATCCCTGCCCTATCCACTACCATTCCCTGCAGTTAGCTGAAAACCCCGAGGAGCTTGTGGGCCAGACAGGCTTGCGGCTTGTATGGCGGCGCCGCACGTACTCGGTGCAGGCTTCCAAGCTGCCTTTACCACATCTGGGCACAAGTTTTGATCCACTCACCCAGACTATAGACGCAGCCCTGTGGATGAAGCTACTGGTGCTGCTGAAGGAGGAGCGCTGGCCTGAGGTCGCTGCCCTCATCCAGGAGCAAGATAAGCTTTCTCGTCAAAGGGAGAAAGCACAGGTACACCAGAGCCGCTGTGGACACTTTATAGAGGTGGCCTATGAGCTGGGCAGTGGAGATACCCTGCAGGTTCAGCTCGGTTCCAGCCTGCAGCGGGGCTTCCTGGCACCAACCCTGCAGCTGTGGACCGTGGTACCTGGCTTCAGCCTATGTCTGGAGCACATGGAACGGCCGGGTGACTGCTTTTCAGGCCATGTGCACCAGCCCCTGCAAGACCAGTACCTCGAAGTCAGCCAGTACTCAGGTGTGTGGGGGCCACGCTGTGCCCTGGAGTCGCTCATGAGTGCGGTTGCAGAAAATGACTCCATCGTGCTGCAGGATGTGCATATCTACTGGGACACATCACAGGAGCAACTGCAGGGTACCTTCCAGCTGGAAGCTGCTTTTCTCCAGGAGAAATGTATCAACATCCACTTTGGCTGTTGCTACCTGTGCATTCGGCTCGAGGGGCTCCCTCTTCCCCTGGCTAGCTCACTCCCTGGACCTAGTGACCTTGGCCCCTTCCTGAACATTGACCCCAATACATATACCTGGGTGGCCCATGGGCTGTCTGGTGACTGGGACCATGAACTGGCTGGTGACTGGGACCAGGAGTGTGTGGATGATCGGCAGGAAGTTCCCAAACAGGTACATTTCTTCATCCACCACATGACCATGGAGAAGGTTCCAGAAGAGGTGCTGAGACCTAGCACTCGGTTCACTGTGGAAGTGCTATCTAAGCAGCTTCCTGACCT
Seq A exon
GTGAGTAGCTCCTATCACCTGAGGTCAGGGAGAAGGTCCCTGGGCTGAGGTCCAGCACCAGGACCTCCTTGTGCCTGGGAGGACACGGTTCCCTCCCTAGGGAAATCCTGTTCACTTTCTGGTATCCTTTCTTACCCCTCCTTCCCTCCCCTAG
Seq C2 exon
CCGCAAGGAAGAAGCTGTGCGTGGACTGAAAAACGCATCCCCACTGGTCATTAGCATCGCCTTGGGCTTGCCGATCCTTGAGCCCCATTGGCCGATCCCTGAGCCCCGTCACCAGATATCCTGGCCCCGTCACCAGATATCCTGGCCCCGTCACCCAATATCTGGGCCCTGTCTCCCAGTATCTGGGCTCTGTCTCCCAGTATCCGGGCTCTGCCATCCAATCCCTGAGCCCTGTCGCCGCGGCTGGCCTCCCCAGCATTCTTCCCGCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013267:ENSRNOT00000017787:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.174
Domain overlap (PFAM):
C1:
PF130871=AAA_12=PD(25.6=4.2),PF0077314=RNB=WD(100=29.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGAAGAGGTGCTGAGACC
R:
GGGAGACAGGGCCCAGATATT
Band lengths:
246-400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]