RnoINT0133862 @ rn6
Intron Retention
Gene
ENSRNOG00000021143 | Setdb1
Description
SET domain, bifurcated 1 [Source:RGD Symbol;Acc:1308370]
Coordinates
chr2:196512113-196514328:-
Coord C1 exon
chr2:196514255-196514328
Coord A exon
chr2:196512304-196514254
Coord C2 exon
chr2:196512113-196512303
Length
1951 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TGCTTCTTTCCTTTGGACAGTGA
3' ss Score
6.65
Exon sequences
Seq C1 exon
ATTTTTAATTTTTTTTGATGATGGCTATGCTTCCTATGTCACTCAGTCCGAGCTGTATCCCATTTGCCGACCAT
Seq A exon
GTAAGTGTCCCTACACGCTTCCTCAGCTAGTCTAGCTGCAGAGAGTTCCCAGTATTTACATGTATCTACCCCCTAAAGGTGGAGTTACAAGCATGCATGACTTTTTTACATGTGTGTTGAGGATGGATACTCAAGTCCACAAGCACACTTGTATAGCAAGAGTTCTTACCCACCGAACTGTCTCCCTAGATCCACAATTGTTTTGAATTGCAGAAGAATCAGTTGCTTATTGTTAACATGGAAATAAACACATGGCAGAGTCTTTTGAGTTTTTAAGTTTTATGTTTGCACATTCACATGTGCTTGGAATTGTATGTAGACCAAAGTTGATATTAGATGTTTTCCATAATTGCTATCTACTTACTGTTTATTGAGGCAGAATTATTGGCTAAACCTGGAGCTTGCCAACTGCAGCTAGCCAGGTTGCCTTGGGGAATGTTTTGTTTCTGCTTCCTGAATGTTAGAATTATAGGGGGTCTTCACACCTGCATAGTTTTTACAAGGGTTCTGTGAGCTTGGTCACCTTGCTTTCATGGCCAGTGCTTTAACTATTTAACCATGTCTCCTGTAGTTCAAGCTGACCTTGAATTCTGTGTATAGGCAAGGATGTCCTTGAACTTTTTATTTACTTATTTATTATATATGAGCAAACTATAGCTATCTTCAGACACACCAGAAGGGGACATCAGATCCCATTACAGATGGTTATGAACCACCATGTGGTTGCTGGGAATTGAACTCAGGACTTCTGGAAGACCAGTCAGTGCTCTTAACCTCTGAGCTATCTCTCTAGCCCTTCCACCCTGTTCTTGAATGTCTAGTCTTCTTCCTCTGTCTATGTGCTGAGAATATTGGTACATGACACCATTCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTATGTGTAAAAGCTAGAAGTTAATGTTGGGTGTCTTCTTACCTTATATTTCTCCTAATGTCTTTAGACAGGGTCTTGCACTGAAGCTCTGACCAGTCGGCTTGGCTAGGCTGGCTTGCTCACTGGTGGGTGGGCCATCATTCTTTTTGAATCCACCTTCCCCCTACAATGCTAAAGTTGCAAATGTGTGCCATGGCACCCAGCCTATGTCAGGGCGAGGTGTCTGAGTTAGGCTGGAGGATGTTTCAGCAGTTAAAAGCACTCGATGCTCTTGCAGAAGACCCAAGCTCAGTTCCCAGCCCTTGTATTTAGCAGTTCATAACTTTCAGTAACTCCACTTCCAGGGTACCCAATGTACTCTTCTCACTTCTTTTGGAGGGCTGCACATACATGATATACAGAAGTATGCAGGCAAAGTACCTAAAATTTAAAAAAAAATCTTTGAAAGAAATAAAAGTTTGGGGGGGATGAAAAAAGAAACAATAGGCTGTGTTGTCGCTCAGTGGTGGACAGCTCTTACTTTGCTTGTGGATCACCAGCATTGATAAGAAAAAGGAGTAAGCCAGGCAGTGGTGGTGCACACCTCTGATCCCAGCATTGGGTAGACAATGGCGGGGGATCTCCGGAGGCTAGCTTGGTCTCCAAAGCAAGTTCCAGGACAGCCAAGGCTGCACAGGAAAACTGTCTCAAAAAAAAAAAAACAAAAAGAAGGAAAGATGAAGAAACAAAGAAGAGGGAAGGACTGATTGTTTCATATTAGTTTACTATATCTAGGGGTTATTAAGATTCTGCATAAAGTGAAGTGTCTGTTTCTTTCACAGGAATTGCTTCGGTTTGCATGTGGCTTAGTTTAGTATTTAACTTGTATATGCATTTGCACATTAGCCTCTGTACGTAAGATAGTCTTGGTTTTCTTCTCTTGAGGGATTTTTTTCTGTTGATTTTTGGAAGTGCCAGCTGTTCTTTCCTTTAAAGATATGTCCTTCCTATACTTAGCTCTGCTTCTTTCCTTTGGACAG
Seq C2 exon
TGAAAAAGACTTGGGAGGACATAGAAGACAGCTCCTGCCGAGACTTCATAGAAGAATATATCACTGCCTATCCAAACCGCCCAATGGTACTTCTCAAGAGTGGCCAGCTTATTAAGACTGAGTGGGAAGGCACATGGTGGAAGTCTCGAGTTGAAGAGGTTGATGGCAGCCTAGTCAGGATCCTCTTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021143:ENSRNOT00000028709:8
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:
PF150571=DUF4537=FE(20.7=100)
A:
NA
C2:
PF150571=DUF4537=PD(5.8=10.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTTGATGATGGCTATGCTTCCT
R:
CAGAAAGAGGATCCTGACTAGGC
Band lengths:
254-2205
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]