BtaINT0078781 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005124 | JADE3
Description
jade family PHD finger 3 [Source:HGNC Symbol;Acc:HGNC:22982]
Coordinates
chrX:90691509-90693856:+
Coord C1 exon
chrX:90691509-90691979
Coord A exon
chrX:90691980-90693738
Coord C2 exon
chrX:90693739-90693856
Length
1759 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
GTTGGGGGTTGGGCTTACAGGTC
3' ss Score
4.81
Exon sequences
Seq C1 exon
TGCTCAATAAAAAGTTGCATCACTGCCTTCCATGTCACCTGTGCCTTTGAGCACAGCCTAGAAATGAAGACCATCCTAGATAAGGGGGATGAAGTAAAGTTCAAGTCATACTGCCTCAAACACAGCCAAAGCAGGCAAAAGCTCAGGGAGTCCGAGTACCCCCTACACAGGGCTTCAGAGCAGAGCCAGGCCAAGAGTGAGAAGACCAGTCTACGGGCACAGAAGCTTCGGGAGCTGGAGGAGGAGTTCTATTCCATGGTCAATGTGGAAGATGTGGCCACAGAGCTGGGGCTGCCCATGCTAATTGTGGACTTCATCTATAACTACTGGAAGCTGAAGCGCAAGAGTAACTTCAATAAGCCATTATTTCCTCCAAAAGAGGAAGAAGAAAATGTCCTGGTACAGCCAAGAGAAGAGAGTATTCACACTCGCATGAGAATGTTTATGCACCTGCGGCAAGACCTAGAGAGG
Seq A exon
GTAAGGTGACCAACTATGACCTAGTGTATACATCTTGGTCTGCATAGGAATGGAGGCCACACTTCCAGATTAAAAAAAAAAAATAACCCATTTATATTTGTAGTATAGGCTTCTATGCCCTTGTTTATCTTCTGATTTCATTGTGGCCCCAAATGTTGGGCTTAGTTGAAATTCTGCTAGACACATCAGAGAATAGAAGAGTCTGTCCTCACTTAGATGCTTTATGAACCTTAAATATGAAATAAATATTTCATTTGGTTTACTTTTTTTCCACTGTTAAACCTAAATTGGCTCAGCTATATTTTACTGACACACTTATGAGACTGCAGGCTGAAGAAAGAATGAATTTTGCTTAGGAAAGTGCCAGATTAGAGTTTCTTAAACTTGGTACTATTGACATTTGGGACTGGATGGTTCTTTATTGTGGGGGACACTATAAAATGTTTAGCAGTATCCCCAGCCTCTACCCACTAGATGCTAGTAGCAAACCCCCAACATGCCCAGTTGTGATAACCAAAAATGTTCCCAAATTACCAGATGCCCTCTAGGGGTGAAAAATTACTCCTGGTTGAGAGCCTCTGTGCCAGATAATTCAGTGTAACTCATGAGATACACACACACACACACACACACACACACTCACTCACACTAAATTAGGTACTGCAGGGATTTAAAGATAAGTTAGGTCCTGTGTTTACCCTAGAGAATCTTATAATCAAGTGTAATGGTAGCTTGTTTTTTTCTGTGCTACCAGAACTTGGAGAGGAACTAATAGATTTTTTGTTGTTCAGTCACTCAGTCATGTCCGACTCTTTGCGACCCCATGGACTGCAGCATGCCAGGCTTCCCAGTCCTTCACCATCTCCCAGAGTTTGCTCAAACTCATGTCCTTTCAGTCAGTGATACCATCCAAACATCTTGTCCTCTGCTATCCCCTTCTCCTCCTGCCTTCAGTCTTTCCCAGCATCAGGGTCTTTTCCAGGAGTCGGTTCTTCACATCAGGTGGCCAGAGTATTGCAGGTTCAGCTTCAGTCCTTCCAGTGAATATGCAGGGTTGATTTTACTCACTTTTTAAAATTTAACTCACACATATATATAGCACTTACTATGTGGTACCACTCTTCTAAGCATTTTGTAAATATTAACTCATAATCCTGACATGCATAAGAAGAAGGTACAGTTATCCCTATTTTCAGATGAATAAACTGGGACACAGAAAGTTTGAGTAACTTGTCCAGATGGGAGAGCATGAGAGAGTGAGGATTTCACCCTTGTGGCTATGGAAACTTGACTGAGCTGGAAGTGTGAGCAAAAAAAGCTACTTCCAGTCTTCCCAGCAGACTTTTATCCTACTGGTCCAGCACTCATTAGAATACTGGATCCAGCATTGCCACCATTTACTCAGGGATCTAAAGGGAAAGCTAAACTGTTAAGTCATCATTCAGTTTTCTAGCCTGACTGCACAGATAAATATCAAGCCCATGATGCCAAAGGAAGAGTAGACTTGAGAAGGTAGCTTTGGAGCTTTTGCTTGTGCTGCTGATTGATATGGGAACCATGATCCCACCATTGACCGTGCCATGTGAATACCTATGTAGCGGCTCTCTTTATGCAGCTTTTAGATTCTGTCTTCTCTCCTCAGCCCCCCATGCCATGTGACGTAAAATTAAGTTGTCTTAATTTTAGCCAAACAATGTTCAGTTGTCAGGTTTGTGTAACATGACAAAACTCTCTTATTTGTTGGGGGTTGGGCTTACAG
Seq C2 exon
GTCCGAAACCTGTGCTACATGATAAGCAGACGAGAAAAAATGAAACTATCATACAACAAATTACAAGAACAGATCTTTGGTTTGCAAGTCAAGCTTGCTAATGAGGAAGTTGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005124:ENSBTAT00000006752:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.146 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138321=zf-HC5HC2H_2=PD(35.4=25.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTCCGAGTACCCCCTACAC
R:
TCATGTAGCACAGGTTTCGGAC
Band lengths:
346-2105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]