RnoINT0076939 @ rn6
Intron Retention
Gene
ENSRNOG00000004956 | Jade2
Description
jade family PHD finger 2 [Source:RGD Symbol;Acc:1309152]
Coordinates
chr10:37270461-37272188:-
Coord C1 exon
chr10:37272057-37272188
Coord A exon
chr10:37271398-37272056
Coord C2 exon
chr10:37270461-37271397
Length
659 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
GCCTTTCTCCCACTCATCAGGTC
3' ss Score
8.56
Exon sequences
Seq C1 exon
AGCCTTCTGGGAGGAGATCAAAGGGCAAGAAGAATGACTCAAAAAGGAAAGGCCGAGAGGGTCCCAAGGGCAGCAGCCCTGAGAAGAAAGAAAAAATGAAGGCTGGGCCGGAGTCTGTGCTGGGGCAGCTGG
Seq A exon
GTAAGTAAGGGGGCCAAGCAGTGTGAGGCCGAGATGGGCCTCTTAGGCCCTTCCTCCTCCAGGTGCCCACAGCAGCTCAGCCTCACTTCACTGGATAGAGTTCTGCTAGCTCAGGACCTGCCCTGGCCAGGGTGCTGGATCCTCCCAGAGGTCCCTAGAAGTCAGCACCAGACCGAGAGGGAGGGCAGGACTGTTCCACCCACCCAGAGTCTTCACTGTCCCTTGTGCCTTATCCCCTCAACCCAGCCACACCAACCTGCTGTTTATTCAACCCCAGCTGACCTTTCTTGAGCCACCCAGAGTCCAAGAAAAGTGACATCAGGTTCCCTAGTCAGTGCCACAGTAGATCTTAGTAGAACTGTTTCAGGGAGATCTCTCTATCTGGTGTTTCCTGGGCGCTGCTGGAGGCACAGACTGTAGATGCAGTGCCCCCTGGTGGCCTGTTTGCTCCTGACACTTTGAAATTCTTCCTTTCTACTCACTCCACAGTTTAAATAGCTGGCCCTGGGGACAGTCAACCTGGTGAGCAGGGGCTGGCTCCTGCTCTTTGGTGGCATTGGTAGGATGCGTAGACAGAGCAGGATGGCTTGCCTGGGTGGGTTGGTCACCTTGAGCTCACACACCTGTAGCATCTCACCTGCCTTTCTCCCACTCATCAG
Seq C2 exon
GTCTGTCCACCTCGTTCCCCATCGATGGCACTTTCTTCAACAGCTGGTTGGCACAGTCTGTTCAGATCACAGCCGAGGACATGGCCATGAGCGAGTGGTCTTTGAACAGTGGGCACCGGGAGGATCCTGCTCCGGGTCTGCTGTCAGAGGAATTGCTACAAGATGAGGAAACACTGCTCAGCTTCATGAGGGACCCCTCGCTACGACCCGGCGACCCTGCCAGGAAGGCCCGAGGCCGCACTCGCCTGCCTGCCAAGAAGAAACCACCCCCGCTGCAGGATGGGCCCAGTGCACGGACCACTCCAGAAAAGCCAGCCAAGAAGGCCTGGGCCCAGGACGGCAAGGGCACGCAAGGACCACCCGCGAGGAAGCCACCACGGAGGACGTCTTCTCATTTGCCGTCCAGCCCTGCAGCTGGGGACTGTCCTGTCCCAGCAACACTGGAAAGTCCTCCAACACTGGCCTCCGAGATCCTGGACGAGACAGTCCCCGCGGCTTCCGACTTGAATGTCCAAGTGCCTGGCCCTACAGTGAGCCCCAAACCCTTGGGCAGGCTCCGGCCACCCCGAGAGATGAAGGTCAGTCGGAAATCTCCGGGTGCTAGGTCTGATGCTGGGACAGGACTGCCGTCTACGGTGGCCGAGAGGCCAAAGGTCAGCCTGCATTTCGACACCGAGGCTGACGGCTACTTCTCTGATGAGGAGATGAGCGATTCTGATGTAGAGGCAGAGAACAGGGGGGTACAACGGGCTTCCAGGGAGGCAGGAGCAGAGGAGGTGGTTCGCATGGGGGTGCTGGCCTCCTAACTCACCCAGGCCCTACTCTGGTCCCCTACAAGGCCTCAGCCCAACCACAACTGCCATTTCCAACTGCTGAGTGTCTCAGACCCACCACTCTGTCGTGGTTTTATTTTTAATATAGAGAGAGTTCTGAATTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004956:ENSRNOT00000043343:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.978 A=NA C2=0.899
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGGGTCCCAAGGGCAG
R:
TGGTTTCTTCTTGGCAGGCAG
Band lengths:
344-1003
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]