GgaINT0011570 @ galGal4
Intron Retention
Gene
ENSGALG00000006138 | HELZ2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:HGNC Symbol;Acc:HGNC:30021]
Coordinates
chr20:14263774-14266152:+
Coord C1 exon
chr20:14263774-14264406
Coord A exon
chr20:14264407-14265368
Coord C2 exon
chr20:14265369-14266152
Length
962 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGC
5' ss Score
4.9
3' ss Seq
TTTCCCCTTTTGTTCTCCAGTGC
3' ss Score
10.55
Exon sequences
Seq C1 exon
ACTCAACCTGCGGGTCCTTATCTCACTGACCCACATGATGCAAAACCTCTCCATGGGGATGAAGTTCGCCCAGGCTGGCGAGCTGTTTGCTGAAGTGCCTACCCCTTATAACCTCTCACCGGACACAGACGAGGGATATCTACTGAACAGATCTGTGCCCACAGCTTTCCTGGCACTTGACCCCCCTGTAGACAATCGAGTTTATGAGGTTAGTGTGGAGAATAAAGCCACCACGGAGAAGACAATCTGGCTACAGATACCAAAGAGATGTTGCTCAGAGCTGAACTTGAAGCCAAAAACCTCCCACAATGTGGAGATCCAGTTCCAAATCGACCAGCTGCTGTTCCGGCAGTGGCACCAGGCTGTTGACCGCCTGTTGGATGAGAGACTGGTCCTACCTGATGTTGCCAGTTGTTCTATCCCCTTCTGCCTCCAAGAGCCACAGATAGGGAACAGCAAACAGAAGTTGGCCATCTCCTTCATCGCTGGCCAGGCAACCAGCAGGCGGCAGGTTCCACCTCTTCTCATCTACGGGCCATTCGGCACAGGCAAGACGTTCACGTTGGCCATGGCCACCCTGGAGGTCATCAGGCAGCCCAACACGCGTGTGCTGATCTGCACTCACACCAACAG
Seq A exon
GTTAGCAGAGGGTGAGGGAAGAGGCATCTGGAGTTGTGGCTGGGTTCCTGCTCTGGGTATTGATCGTCCAGTGTGATGAGAGGGAGCCAGAGTCTGTGAGAGGGAGCTGAGCTGGCCTTTTTCCAGTTTGCTTTTCAATTACTTGTTTAAATAAAAATGAATTATTTATTGAATATGTCTTAAACTGCCTTGGCACTCCTGCTAGGAGGAAGCCTGGCATGGATGGAAGTGTTTGCAGAAGAGGTAGCATATTCCTGCTTTGTTATACAATGGGGATGGTGAGACCATATTTCTTTCTAGCCTTTAGTGTGTACTGGAAGAAATGGAAGGGAGTCTGCAAATGCTCTGTGCACATGTCAATGTTTTGACTTTTCCAGGAAGATTATAGAGAAAGGGAAACGCAGATCCGATCGCTGTTGAGTCTGCCTTGAGAGAATCCAAGATTGTTAAAATTAGAGCAGTTATGCTGAGTGTCTCCATCCCATCGTGCAGGCGGTTACTGCCTTGGTTTTTAATGTATAATGAACAGGTGACTCCTAATCTTAGCCTGTGTCAGGCTGATTGCACTGAAGCTTCTGTTGGCATCATCTGCCTGGGCTAGGAGTGCTGGGAGGTCAGCACAGGAGAGGTGTTGGTCCACGTCTGTAGGATTTGGACCTAGAGAAGCAGGGCCGCTTACTGGGCGTGTTGCTTTTCAAATGATTTTTCCATGTGAGCACTGGGTGATGCCCAAGTCTCAAGTACCAGCTCATATTTTAAACCATGCTCTGACAATATGGTTGGACTTAGTGGCTTCTTTGCACATGTGTGAATATTTCTTGAGAAGAATGCCTTGTCAGCCAAAGCTGGGGTAGATTTGGGCTGCTTTGTGGTGAGTGATCAAAGAAGACAATGGTCTTCATGGTCAGAACATTGGGAACACCAGATACAATCCCTTGATAATTTCCCCTTTTGTTCTCCAG
Seq C2 exon
TGCTGCTGACATCTACATCCGGGAGTACTTCCACAAGTACGTGACCAATGGGCATCCCTGGGCTGTTCCCTTGAGGATTATAGCCACTGATCGCCCCATCAACCTGACTGACCCCACCACCCAGATGTACTGCTGCCTCACTAAAGACCAGCGCTCCTTCCGCCACCCCACGCGGGAGGAGATTGACAAGCACCCAATCATTATTACCACCTCTATGCTATCCAAGCACCTGAAGGTTGCCCCGGGGTATTTCACCCACATCATGATTGATGAGGCTGCTCAGATGCTGGAATGTGAAGCTTTGATTCCGCTCTCCTATGCCACTTTTGAGACCCGGATTGTCCTCGCTGGGGACCACATGCAGATAACCCCAAAGCTGTTCTGTGTTGCGGATGGGCAGTCTGCATATCACACCCTGTTAAACAGACTCTTTCAGTTTTACCAGAAAGAGAAGCACGAAGTGGCCATGAAGAGCAGGATCATCTTCAATGAGAATTATCGTTCCACTGCAGGCATCATTGAGTTTGTCTCCAAGCACTTCTACATTGGCAAAGGCAATGCTATCCATGCCAGTGGGAACATTCCACCCCACCCTGAGATCTACCCGCTCATGTTCTGCCATGTTCCTGGTGTGGCCGAAAGGGATATGTCCATGATTTCTTGGCACAATGCTTCTGAGATAACACAAGTGGTTGAGAAAGTGGAGGAGATATATCAGAGGTGGCCACACGAGTGGGGTGCTCAAGATCAGAAGAGGATCTGTGTGGTCTCCCATGGGGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006138:ENSGALT00000009906:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.009 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF130861=AAA_11=PU(31.9=28.8)
A:
NA
C2:
PF130861=AAA_11=PD(67.5=49.2),PF130871=AAA_12=PU(61.3=47.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTCCTACCTGATGTTGCCA
R:
TGGGGCGATCAGTGGCTATAA
Band lengths:
342-1304
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]