RnoINT0133859 @ rn6
Intron Retention
Gene
ENSRNOG00000021143 | Setdb1
Description
SET domain, bifurcated 1 [Source:RGD Symbol;Acc:1308370]
Coordinates
chr2:196515540-196516438:-
Coord C1 exon
chr2:196516339-196516438
Coord A exon
chr2:196515666-196516338
Coord C2 exon
chr2:196515540-196515665
Length
673 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
TAACAACTCCATGTTTATAGGAA
3' ss Score
5.44
Exon sequences
Seq C1 exon
CTTCGTGAAGCTATGGCTGCCTTAAGAAAATCAGCTCAAGATGTCCAGAAGTTCATGGATGCTGTGAATAAGAAAAGCAGTTCTCAAGATCTACATAAAG
Seq A exon
GTTAGTGTCGAGGAGTACCTGCATAGATGAGACGTGAGTTCTTTCCGGAATGTTATTGACAGCTTTGCCTCTCACAGTGCTGTTTGACTTGCCAGTCTCTTTTTAACATAGTTTTATGTCCACAGTCAGTCTGAGGTGACTGATGGATGTGGTGGCTCAGGCTGTTAACCGTTGTTAGTTGCTGTTGGTAAGGAGTGGGCCATAGTTGGCTGTGGCAGAGGCTAGTAGGGTACGCCAACGGAGGTAGAGTCGTGGGGATGTTCTGTATTCATTTCTCCTGTCCGCATAAGCAGTTGGTTGTCTTGTGTTTCTGCCTCTTCTGTCCAAAGTTTAGCAAAAGTGGCTAATGGTCACAGAATGCCTCAGTCTCCTCTGTTTCTACACTGCCTTCTGATTTTGAGATGGTATCTTTTGTATCCCAGGCTGGCCTTGAGTTTCCTGTGTTGCTGAGGATGACCTTAAACTTCTGATCCTCCTGCCTTCCCTACCTGAGTACTTGAGATTACACCATGAACTATGCCAGGCGTATACAGGGCTGAGGTTCAAATTCAGGGCCCTGAGCAGGCAAGGCAGCCGCTGAGCTACAGCCCCATCCTACCTTCCTGCCCTCTGGACCTTCCCTTTCCCCGTCCAACCCCTGACATCACTCTTTATAACAACTCCATGTTTATAG
Seq C2 exon
GAACCTTGGGTCAGGTGTCTGGAGAACTGAGCAAAGATGGGGACCTGATAGTCAGCATGCGGATTCTGGGCAAGAAGAGGACTAAGACGTGGCACAAAGGCACCCTCATTGCCATCCAGACTGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021143:ENSRNOT00000028709:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.434 A=NA C2=0.116
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF150571=DUF4537=PU(17.4=48.8)
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:
ATGGCTGCCTTAAGAAAATCAGCT
R:
CGACAGTCTGGATGGCAATGA
Band lengths:
214-887
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]