GgaINT0017581 @ galGal4
Intron Retention
Gene
ENSGALG00000006424 | JADE2
Description
jade family PHD finger 2 [Source:HGNC Symbol;Acc:HGNC:22984]
Coordinates
chr13:15085600-15088175:-
Coord C1 exon
chr13:15088038-15088175
Coord A exon
chr13:15086454-15088037
Coord C2 exon
chr13:15085600-15086453
Length
1584 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
GAGCCAATTCTCCACTTTTGTTT
3' ss Score
-4.02
Exon sequences
Seq C1 exon
AAATGCCAGAACAAACTGGGAAGAAGACAAAGGGTAAGAAAAGTGATCCGAGAAGGAAAGGAAGAGATGGTAGAAAAAATAGCCCTGAGAAGAAAGAAAAAAGGAAATCAGTCAACGAAACTGTGTTGGGACAACTGG
Seq A exon
GTAAGTCTGATTTTATGGGCACAAGAGCTTCTCGTGGGCTGGCAGCTCTCCGGAGGCTCCTGCTTTTGGGGAGCGGCGTTGAGGAGCAGTGCGGTGCAGCCCCCAGCCCATCCCATGTGGGATCAGCCCCAGCATGCCACGGCCACAGTGCTGCAGCAGAGACCTCACCCTGCTGGGTTCAGGCTGTAAAACAGCCTCGGGGTTGCACGGTGTGCAAGAAAAGCTGCAATTGCACTCGGTGATAAAATCAGACTTACCCACTTCAAAGCAGGGCGGATCCTGTACATCTTCTGTGCCATTTTGCTTGCATGTACCTCCAGCACCATCAGTGCTGTTCCAGCAGATGCTTCTCCCACCTCTTGCTCTGCTCTATCAGCTGCGACCCCACCAGCAGAGCAGGGGGAGTTTTCTGGGGCAAACTCTGTCCTATTGAACGGGGGCCTACAGGGTTGTGGTAAGAAGCTGTCCTTCAGTCAGTCTGGAAAACCAGGCAGCAGAGAAGAGGAGCAAGGTCTTGCAAAGCTTCACCAGGGTCTTGCAGTGTGCTGGATTTACAAAGAGCTTGAGGCATCGCTTGGGGCAGCTGTGATGGGGAGGAGCCTTGGGGTGCACTGAGCTGATCATCCCTGTGCTCCCTGCCCTGCCCTGCAGCACCAGCAGAACTGTTCTGCAGAAGAACCACAGGGGCACATGGGGACTTCCTCTTGGGGTGACGGTCCCCAGGCTGGGCTCACTGCAGCTTCATACTAGCGGTTAACCCCTGGGGTGCTTACCCACGCGGAAAGGTGGCACTGGGTCATGCACCATGGAGGGGGAGGGGGGTTGTGTTTGCCGTGCTGTGAGTCAGAGCACCACTGCGCTGCTGCTTTGGCAGGCAAACACTCACAGCAAAAGTCAGATCTCATCTTTCCCCCAGCCCTGAAGGAAGCTGTGATGTCGGACCGATGGGTTTCTGTTGCAGGGATTGAAGCTGGTTCTGCCTGTGTGCCTTTGGCATTGCTTCTTGGTCTGCTGATTGGGCACGTCCCAGCCCATCATGCTCACTCTTGCTCTCAGACAGAATTATTAGGATGCTTTTCAGCTTTTTCCATTCCAGCCTGTCATCTCTGCTGCCGCTCTTTGATTCTCATGCTTCCAAGTGCTCAGAGGGAGCTTCCAGTCCCTCCTCCCATCTCACCCAATCCATGCTGTGTTAGGGTTCACTGCCCGTTCAAGAGTGTGCTGGGAGCTGAGTTAGCGCAGCGCTGCGGGCAGTGGGGCAGCAGTGGGGGTCAGCCAGGACGTGCCTCCGGGCAGGACTGTGCAACAGCTCTTCAGCAGGGGATGCTGAGCCCTCCTTGTCCTGCCGCCCCTGCACTATGCTGTGGTTCCGGGCTGCAGGAAGATGCTCTGCTCAGATCTGTATGTGCCGTGACCCCACAGTCAGATTCACTACTGCAACAAACCCTCTTCTGGTTCCCCATGTGGCATGCTGAGCTTTGCCATTTTGAGTTGATCCAGTGTCAGGGAGTTTTGCTGAGCACTGTGTGTTCTTGGTCAAAGGGAAGAGCTGCTTCTGGTTCCTGAGCCAATTCTCCACTTTTG
Seq C2 exon
TTTTCCCAGGCTTGTCGACTTCCTTCCCCATTGACGGGACCTTCTTCAACAGCTGGCTGGCGCAGTCGGTGCAGATCACGGCCGAGAACATGGCCATGAGCGAGTGGTCCCTGAACAACGCGCACCACGAGGACAGCACGCCCGGCCTGTCCGAGGAGCTGCTCCAGGACGAGGAGACGCTGCTCAGCTTCATGATGGACCACTCCCTGAGGTCCCCCTTCAAACAGAGCGAGGCCGCCAAGAAAGTGAAAAGCAAAACAAGAACGAACACTAAGAAAAAGCCGCCCCGGAGCGGCCTGACCGCCGTGTTCAGGAGCCAGCAGGAGGGCTCGGAGCGGTGGACTAACCACGGCAGCGACCTGTCAGACGATGCTGCCAAGCCCTGTGCCCAGGAATCGCGGCCCGGCAGGTCGGAGAAAGGGGCGGCGAGGCCCGCGGACCGCAGGGGATCGGGCGAGGCGAAAAGGGCGGCGAGGAGGGGGCCCGGCCCCAAAGGCAACGACCCGCCGGCCCCGCGAGGCTGTGCTGGAGAGGAGGAGGCGGTGGTGGCGGCCAACGGCGCTCGGCCCGAGCCCAACCCCGCGGCTCAAGTGCCTGACCCCGTAGGTAGCCCGAAAACCGTCGTGCGGTTCAAATTACCAAAGGAGAGCCGAGGGACTCGGCGCTCGCAGCCCCCCAAGACCGACGGCCCCGGAGGGCCCCCCCTGCGCCGCTTCGAGGCTGAGACGGACGGCTACTTCTCCGACGCCGAGATGAGCGACTCGGACGGGGAGCCGCGGGGCGGCCGGGCGCAGCGGGGCCAGCTGGAGCCGGGCGGCGAGGAGATCGTGCGGATGAGCATCCTGGCTTCCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006424:ENSGALT00000010368:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.766 A=NA C2=0.884
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAGAAGGAAAGGAAGAGATGG
R:
TTTTCACTTTCTTGGCGGCCT
Band lengths:
343-1927
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]