BtaINT0078759 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017493 | JADE1
Description
jade family PHD finger 1 [Source:HGNC Symbol;Acc:HGNC:30027]
Coordinates
chr17:29383125-29386158:-
Coord C1 exon
chr17:29385947-29386158
Coord A exon
chr17:29383293-29385946
Coord C2 exon
chr17:29383125-29383292
Length
2654 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
GATGTGCGGTGTCTTCATAGGCC
3' ss Score
9.08
Exon sequences
Seq C1 exon
GAATGCCCGAGTTAGATGAATACACCATGGAGAGGGTCCTGGAGGAATTTGAACAGCGGTGCTATGACAACATGAACCATGCAATTGAGACTGAGGAAGGTCTGGGGATCGAGTATGACGAAGATGTCGTCTGTGACGTCTGCCAGTCACCTGATGGTGAGGACGGCAACGAGATGGTGTTCTGCGACAAGTGCAACATCTGCGTGCATCAG
Seq A exon
GTAGGTGGGCAGCGGGGCCTGGGAGGAAGCCACAGATGGGGGGCTAAGGACGTGTGCCCATCTCTTTCTTATTACCGGGTGTTTCAAGTATTTCTTGCTGCTTTTACAGCCAGGAGAATGGGATCCTGTATTAATTTGCTTGGGCTGCTCTAACAGAGTATACCACCAGCTGGATGACTTAAAATGACAGAAATTATTGTCTTGCTGTCTGGAGACGGGAAGCCTGAATTCAAGGTGTCGGCAGGGCCATGCTCCCTCTGAAGCGCCCCCCCTCGCCTCTCTGGCCCCTGGTGGCTTGCTGGCAGTCGTCGGCATTCCGTGGCTTGCAGCTGTGCACCGCTCTGGCCTCCGGCTTTGCCGTCGCTCCGTGTTCTCGCTATGTGTCTCTGTCTTGACACTTGGCCGTCTTGTAGGAAGACCCGTCACAGTGGGTGAAGGGCCCTCCCTACTCCAGTGTGAGCTCATTGTAACTGACTACATCTGTTTTCTTCTGGGTTAGGACTGACTTTAACATAAACTTTTTGGACACAATTCAAAACATCACTTTTGCTGACATCACGATAAACTGAGCCCTTAAACAAGAGGAAAGGGGCCCTTTTTCTTGAACGTTATCTCCTGTCCTCCCTGATGTCAATAGGATTTGGCGGTTGCTTCAGTAAGGATGGGCATAGGGTAATTTAAAAAGCTTGGGAGAATCTCAGTCTCGACTCTTCTTTCATTTATTTTTTAATACAATAATAATCTGTATTTCTGTGGGGACTGTGTTCATATAAACTCTTTGGAAGACTCTTCTGAGGTACTTGCTTTGAGCTCACCTGTTGATGCTGAGATTTACAACAATCTTGAAGACTTGTGTGGGATGGTGGCTTGGTGACCTCTGGGGAAGAAGAATCGAGTTTGTGATTCTCGGCTGTTTTTGTCCTTCTGGCTGCCTCCTGGGGGTCCCTTCTGCCCGGGCACTTCACAGGCTGTGTGGCCTTAGCCCATCTCATCCTCACGACACATGAACCATAGTCTCCTGCTGATTGTGTTGTAGTAGCTCTGGATTTTCAGATGACCGAAGAGCTTTCCTTGGGATGATGGAGAATTCTCATAGAGGTGTTGTCGTCTCAACATGATGCGCGTTGTGGCTACCATTTCACTCCTTTGTGCTATTTTACTTGGATGACATTTAGTTTTTTTTTTTTTCCCTACCATTTTTACTCCCCGCCCCCCTCATCCTGAGAAAAGTTTTGTTTGAAAAAAAGAGTTCTACTTGGAAACTGCTCAAACCCTCTGTTTTATGAATGAGTCACCTGGTGTCAGGGTGGGCTGCTCAGAGTCCCACAGTGGGTTACTGGCAGAGTTGAAACTGGAACCCCAGGGTGGGGGTTGGGTTGTGGGGGGCAGCTCTAGACACCCCACCCCCCAGCCTGGTCTCCTGTTCTTTTGGCCACACCTCATTGTCTCTTAGTATTTCCTCTGGGTCCTTTTTCTTTTGGGATGTTCTTCATGACTTGTCTTTAAGGCATCCTTTGTTTAATCTTCTAATTTACTTAGACTTGTTTTTCCAGTAAAAAAGAAAAAATTACCTGCTCAAATGAGACTTTTTTTCTGGAGTGCCTGATATAGACTTTTTTGGTATTTGAAGCCTTAATAGTGTCAGTTCTATAAAAAGTTTTGTCTTGTTTTGTTTTTCCGGTCGGGCTGTGTTGACAGTGGCTCATTCACGGCACCGACACTGCTCCTGAGCTCCAGCCTTAGTGTCACTTAACTTTGCTGCACTCCCATCCTGTGGTTTCCTTTTTGCGTCCTGGATATTCAGATTGCATAGCGGCTGTGTTTTTCCTGTCTGGAGAATTGGAGTTGTGTTACTCTGTCTCTCCACTTCCTGACTCGTAGTTAGTTCATTTAAGGATACAGTTCTGAACAGTTTGGTGTTTTTAAACGGCTCTGACTGTGCTCCTGGTCCCATCACGGTTTTCTTTCTCTGCTTCTTCAGCGTTTGCCTTTTCTTTCTTTGACCCATCTTAATGGCTTTTAGTTGCCTTGAGTTCTGCAGTTATTGCTGTCTTGTGTAATTTGCCATCTTATGTAAAGCAGGCTTTGTTTTGAACATCAGCCAAAGAGACCAAATTTCTTGTTTTGTCTAGAAGGTCTCATTTTTCTGTGCCTGTGGTGCTCACTTGGGGTGAGGAGGCGTGGGGGCCAGGTTAGTAGAGCTTGCTCAGCCTGGGGGCCCAGGCTGCCCCTTGGTTCTTTCTCATGTCCAGAGGTGTCTCATGTCACAGCTTTGGGAGACTCAGCTGCTTTGTGCTTTCTCCTCACTCTGTCTCAGCTGCATCAGTAAATCGGAGGGATGCCTACCCCGTCTAGCTCTGGAGAGTGTTTTGAGGGTTTACTGACTAATATTTAGAAACTTGGTACAGGGGGTATCTGTAGCTACACAGCAGATTTCTGTTGGACCTTTCTGTCCTTGAGTGGTTCTCAGGCCCCCCCCTGGAGTGTGTGTCCCCCACCTCCTGACTGTGAGGCTGCCCGGCACCTTTCCTGAAGGGAGTGCCTCTGTTTGGTGGCAGTTCTGTTAAACTCTTTCTAGGTGTTTAAAATTAATAGACATACGGGAAAAACAACTCTCTTCTCTCTTTTCCTTGGGATGTGCGGTGTCTTCATAG
Seq C2 exon
GCCTGCTACGGAATCCTCAAGGTCCCAGAGGGCAGCTGGCTGTGCCGGACGTGCGCCCTAGGCGTTCAGCCCAAGTGTTTGCTGTGTCCCAAGAAAGGAGGAGCGATGAAGCCCACCCGCAGCGGGACCAAGTGGGTGCATGTCAGCTGTGCGCTGTGGATCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017493:ENSBTAT00000032115:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF105134=EPL1=PD(12.4=26.8),PF0013017=C1_1=PU(75.9=62.0),PF138311=PHD_2=PU(42.9=21.1)
A:
NA
C2:
PF0013017=C1_1=PD(20.7=21.4),PF138311=PHD_2=PD(51.4=32.1),PF138321=zf-HC5HC2H_2=PU(28.3=57.1)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development