RnoINT0133850 @ rn6
Intron Retention
Gene
ENSRNOG00000021143 | Setdb1
Description
SET domain, bifurcated 1 [Source:RGD Symbol;Acc:1308370]
Coordinates
chr2:196498598-196499876:-
Coord C1 exon
chr2:196499248-196499876
Coord A exon
chr2:196498627-196499247
Coord C2 exon
chr2:196498598-196498626
Length
621 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TTCCCTTGTTCCTTTTCCAGGAC
3' ss Score
12.61
Exon sequences
Seq C1 exon
GCAAAATCCTGACAGATGACTTTGCAGACAAAGAAGGCCTCGAGATGGGTGATGAGTACTTTGCAAATCTGGACCACATTGAAAGTGTGGAGAACTTCAAGGAAGGATATGAGAGTGACGTCCCCAGCTCCTCTGACAGCAGTGGGGTGGATATGAAGGACCAGGAGGATGGCAACAGTGGCTCAGAGGACCCTGAGGAGTCCAACGACGACAGCTCCGATGACAACTTCTGTAAGGACGAGGACTTCAGCACCAGTTCAGTGTGGCGTAGCTATGCAACCCGGAGGCAGACTCGGGGTCAGAAGGAGAGTGAACTGTCTGAGGTGACTTCAAAGGACTCCCGCGCCCCAGACCGTGGGCCTCCCCACGTCCCTATCACTCCCTCAGGATCTGTAGGGGGTTGCAATCCACCTTCCTCCGAAGAGACACCCAAGAACAAGGTGGCCTCATGGTTGAGCTGCAATAGTGTCAGTGAAGGTGGATTTGCTGACTCTGACAGCCGTTCCTCCTTTAAGACTAGTGAAGGTGGAGATGGCCGTGCTGGGGGAGGCCGGGGAGAGGCTGAAAGAGCCTCTACCTCAGGATTGAGCTTCAAGGATGAAGGAGACAGTAAGCAATCTAAAAAAGAG
Seq A exon
GTAAGAAATTTGAGAGCAGTCCTACTTCCCTGTAGAAGTAATTTACTTTAATTCATAGGCCTGGTGGTATAAAACTGCATCTGGTATGGTCATCCTAGCTGGCAGACTCCCAAGGCAGTGTGAGGTGTTACACGACAAGAGTCAGGGAATGTGTATTTATGTTAAAAGCAGTGCCTTTTAGCATTGGTACAAATGAAGATTGAGACAGGGGGCTCCCCCCTTCCAAGACTCCATCTCAAATGCAAAGAAATAAAGAATTGATTCCAAGTATATTGAGTTTACTGCTGTTGTTTTTTTTATTTAGACAGGGTCACAGTTCACTCCAGGTTGACCTGAATTTTGCTATTAGAAATTGTATCTTTGATGTTGAAATATTCCCCGTTACAGGTGTAAAAACTGTTGGGTCCAGGAAGCACTGCTCACAGTGCTGTTCTCAGATGCCCATTATTGGGAAAGGTTAAAGGCCCTTGCCAGGGGAATATACTGTTGACTGTTACTGTTATCAAGTTACAATGTGATTTCCCCACATCACCCCCTTTAGTGTGCGTCATGGTAATGTTGTTTTTGGAGATCTACCTTGGACCAAGAAAGCATTTAACTTTTCCCTTGTTCCTTTTCCAG
Seq C2 exon
GACCCTGAGGACCGAAACAAGATGTCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021143:ENSRNOT00000028709:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.810 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(46.2=100)
A:
NA
C2:
PF0085623=SET=FE(2.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGGTCAGAAGGAGAGTGAA
R:
TCTTGTTTCGGTCCTCAGGGT
Band lengths:
358-979
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]