BtaINT0078765 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021687 | JADE2
Description
jade family PHD finger 2 [Source:HGNC Symbol;Acc:HGNC:22984]
Coordinates
chr7:47696832-47699037:+
Coord C1 exon
chr7:47696832-47696966
Coord A exon
chr7:47696967-47698228
Coord C2 exon
chr7:47698229-47699037
Length
1262 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TCTTTCCTCCCCCTGGCCAGGTC
3' ss Score
9.68
Exon sequences
Seq C1 exon
ATGCAGAGCGGTCTGGGAGGAAAACAAAGGGCAAGAAGAGCGACTCAAAAAGAAAAGGCCGCGAGGGCCCCAAGGGCAGCCCCGAGAAGAAAGAGAAAGTGAAGGCAGGGTCCGACTCAGTCCTGGGGCAGCTTG
Seq A exon
GTGAGTGGCCTGGTGCACACAGCCAGACTCATACCATCACTGCACTTGCAGCTCCCCGCCAAAGGCCACGGGAACCACCAGCATCCTTGCTGCAGAGTGGGAGGCCAGGAGGGGTCGGCAGGCCCTTCCATGCCCAGGCACTCCCACCTTCCAGGTATAGAGGAGACTGAGGTGTCGGAGCCCTAGCTGGCCTCCCAAGGGTTCCTCTCGTAGACTAGAGGCTGGGCCCAAGAACTTCTCCCTCTAGACATCCTGGCCCTTCAAGGAACCCTGTGTCATGCTGTGGGGTGAGGGCCTACCATAATTCTCTGTCCCTGTCCCCCTCTGCCAGAATGTCCTCAAGTAGGCCCTCCCTTCATCCCCTGCAGACTTTCTGGGAGCCACCAGAGACCCCCACAGGAGTGGTGTTTGCCCAGCACATCTCACTGTCACAGCTGTCTGTCACAGATCTCTCTACTGCTGCCCCATTAAGCATGGTATCCCTAGAGAGGCTCTGGGACTTGGGCTTTGTCTCCCAGGATGTCACATGCTTCCTCTAGAGCACTCCTCAGGGAAGGGGCGTGCTCTAGAGGAACACCTCAGCACTAGCGTGGAAGCCACACTTCACCTCTAGCATCGAAGCCCCAGGTCACCTCTAGCATGGAGGCCCCAGGTCATCTTTTATTTCCCTCGGTCTCAGGAAGGAGACAACTTGGTATCTAATGGGAACATCAGTGGCCACCTTCCAAGACCTCAGTAAAGGAAGGAGAGCCCATAACTGGAGCTGGCCCTGACGGACACCCTAGCCAAGACCTTGCTTTGGAAGCTCTGGAAAGCAACACTCATGAAAACCCAGCGCCCCCTGGTGACCAGAGGGCTCCTTATCCCTTATGCTCCCAGGATGATGCTATGTGGGGTGGTGAGCAGGGCTGGGTGTGCTCCTGTGCAGTCACCAAGGGCCCTCGCTTGGTTTAATGCTGTACTGTAGCCACTTTGAAATTCTTAATAATTTTTGAATAGGGAACCCACATTTGTACTTTGTACTCTGCTCCTCAAACTATGAAGACAGTCCCCAGGAATAGGACATCTATCTGGGGAGAAGGGTGTTCAGTGTTCGCAGGTGGGATGGACAGAACAGGTTAACTCAGCCGGGTCTAGCACAGAGGGAAAGAGGGAGGAAGGTCCGTGATGGTGTGCAGGGCAGGGTGGGAGAGGGCTTCCTGAAGGAAGGTGGGACACATACCTGCTGGCATCTCACCTGCCTCTTTCCTCCCCCTGGCCAG
Seq C2 exon
GTCTGTCTACCTCGTTCCCCATCGACGGCACCTTCTTCAACAGCTGGCTGGCGCAGTCAGTGCAGATCACCGCAGAGAACATGGCCATGAGTGAGTGGTCGCTCAACAATGGGCACCGCGAAGACCCCGCCCCAGGGTTGCTGTCCGAGGAGCTGCTGCAGGACGAGGAGACACTGCTGAGCTTCATGCGGGAGCCCTCGCTGCGACCTGGCGACCCTGCCAGGAAGGCCCGTGGCCGCACCCGCCTGCCTGCTAAGAAGAAACCACCACAGGACGGGCCCGGTTCACGGACGACTCCAGACAAACCCCCCAAGAAGCCCTGGGGCCAGGATACTGGCAGCAGCAAAGGGGGTCAAGGGCCACCTGCCAGGAAGCCACCACGGCGAACACCTTCTCACCTGCCGTCCAGCCCTACAGCTGGGGACTGTCCCATCCCAGCAGCTCCTGAGAGCCCCCCACCACTGGCCCCCGAGACCCCAGAGGAGGCAGCCCCAGTGGCTGCCGACTCTAATGTCCAAGTGCCTGGCCCTACAGCGAGCCCCAAGCCCTTAGGCCGGCTCCGGCTGCCCCGTGAGAGCAAGGGAACCCGGAGATCGCCAGGTGCCAGGCCTGATGCCGGGACGGGACCGCCTTCTGCTGTGGCTGAGAGGCCAAAGGTCAGCCTTCACTTTGACACTGAAACTGATGGCTACTTCTCTGATGGGGAGATGAGCGACTCAGATGTGGAGGCTGAGGACAGCGGGGTGCAGCCGGGTCCCCGGGAAGCAGGGGCTGAGGAGGTGGTCCGCATGGGGGTCCTGGCCTCCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021687:ENSBTAT00000028903:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.804 A=NA C2=0.907
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCAAAAAGAAAAGGCCGCG
R:
TTTCTTCTTAGCAGGCAGGCG
Band lengths:
356-1618
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]