BtaINT0078757 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017493 | JADE1
Description
jade family PHD finger 1 [Source:HGNC Symbol;Acc:HGNC:30027]
Coordinates
chr17:29388462-29390655:-
Coord C1 exon
chr17:29390498-29390655
Coord A exon
chr17:29388650-29390497
Coord C2 exon
chr17:29388462-29388649
Length
1848 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAC
5' ss Score
6.89
3' ss Seq
CTTGTTTTCTTCTTAACCAGGGT
3' ss Score
8.76
Exon sequences
Seq C1 exon
GTGTTTAGGACAGACCTGATCACTGCCATGAAGCTCCATGACTCCTACCAGCTGAACCCGGACGAGTACTACGTGCTGGCGGATCCCTGGAGACAGGAGTGGGAGAAAGGGGTCCAGGTGCCAGTGAGCCCTGGGACCATCCCCCAGCCTGTGGCCAG
Seq A exon
GTAGACGTACCTTGGAGAGGGGCCACCCCTCCCCCACCAACGGTCTTACTGCCCTGCCAGCCAGCCGGCTGTGGGGAGCAGTGTGGAGTTAGCAGTAGGGCTTCTGGGGGAATAAGAAAGGTGGTAGAAACACGCCTCGGGTCCGCAGGTGGTGCTGTGGGCCTCCACCTTGGAAGGTGCTGCTCTCCTCGAGAGGAAGGTAAATTCCAGGACTTCCTGGGAAGTGGGGGGTGGGGGGGGACGCCTGGATGTAGGCACAGTGGCTCCCTCTTCTGGAGGCCGCTCTCCTGGGGAGGGGTGTCTGCCTGTCGTCCTGCTGGGTCAGCGCCACCTCTGGGGGAGGACGGGGGTGAGCAGTCCTGTCAGGTTAGGGCTATGTGGATGGGACCTTAGAGTTCTCCCTGGATAAACTTTGCCCACATGTTGTTAGAGACTTTCTCTGGATTTTACTTCCAAACCACTTTTCCCCTGAAAGGTTTTGAGGGTCAGGCTTTGATGACCTGCCTCAGCATGAAGCTGGGCTTGTTTGCTCACCTGTCTGAGGCTGCTCACAGGGAGAGAGCGCCCGACTTCACCGCCACCTCAGCTCCCTGCTTTGCGAAACGTCCTCTTTCACCATCACTGAGTGTGGCCTGAGTTTACCCTCAGCCCTCGCCCCCATCATGGCCTCAGGCACTTGAGATGATCGAGCCTGATTATTGGGTTAGGGGTCCCTGGGACAAATGTCCCCATAAGTGCACAGGATTAAATGACCCTCCCAGGCCGGACTGCCGTCTGGGAAGTGAGTGGAATGTTCCCTGGGCTCTTTAGGTTTCACCCAACCCTGGGGCACAGCACCACCTAACTGCTCAGCGCTGGCATCCCCAGTCCCAGGCATTCTGAGCCCAGCAAAGGACAAGTAAACACCCACACAGCTTGTGGAAGTTTTCACCTGAAACCCTGCCCTTAGTTGAGTAGGAGGAAAAACTCCCTTAAATTTGCCTATCTCAATGTCATATATTAATAGATAAAGTCACTCTGGTATTATAAGGGTGATGGAACTATGACGGACTCCTTGGACAGCTGGGTATAAATGCAAACTGCCGGCGCCCTGAGACCTGGAGGTGGAGGGATGGTGTGGATGTGAGCGGCTCCTGGGCCGCCATGGTCTCTGGTCAGCAGTGGCTGGACCTTCTCACGTGCTGTCTTTCTCCTGAGCGGGTGTGAGGGCAGCAGTTCTCCAGGTGTTCACAGGTGGAAGTATGAGGAGCAGAGGGACCTTGCCTTCTCTCCTGGGATCCCAGGTGTGTGTTGGGAGTGTCCCTAACTTGGCCGGGACTCTGATTCTCAGGCTGCCTGGAGATGGCCGAGGCCCGAGTTTTAGCCCTGGAGGGGATGGTTCCTCCCTTGGCTCCCCAGCGCGCCGCTGTACCCGCTGTGTGGCTGCTCCTGTCTCTTCTGTGTCCCAGAGAACCCCGTGCTTGGTGGTCTCCAGCAGGGGCGGGCAGGCCTGGATTGTGGAGGGGGATCAGTCATTAACCCTTGACACTTAGGGCGGGGTGCATTCTTGTGTGTGTGCGCTGCTGTCAGATGGCGGCAGGCACGCAGGGTCCTGGGAAGCCACACGGAAGAAGCTGGTGGTGACAACTTCGGTAGTTTTGTCACTTGACATCTAGTTTTATTTTAGGGGCTTTAATGACTCTACTGTATTTTATTAGCAGTGATGTTAGGGTGTTAACTCTCTTAACCAGGTGGTGACCTGGGGTTTGAGGGTCAGAGGTGGAAGCTCGCCTGGGGCCTTCTGACAGACAGACTTGCTTCCTTGTGGCAGGAAGGGTAACCCCGCTGCCTTGTTTTCTTCTTAACCAG
Seq C2 exon
GGTCGTATCTGAAGAGAAATCCCTCATGTTCATCAGGCCCAAGAAATACATTGTCTCGTCAGGCTCCGAGCCTCCGGAGCTGGGCTACGTTGACATCCGCACACTGGCCGACAGTGTGTGTCGTTACGATCTCAACGACATGGACGCCGCGTGGCTGGAACTGACCAACGAGGAGTTTAAGGAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017493:ENSBTAT00000032115:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.283 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF105134=EPL1=FE(34.0=100)
A:
NA
C2:
PF105134=EPL1=FE(41.2=100)
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:
GGACAGACCTGATCACTGCCA
R:
TCCTTAAACTCCTCGTTGGTCA
Band lengths:
334-2182
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development