RnoINT0169017 @ rn6
Intron Retention
Gene
ENSRNOG00000001335 | Zkscan1
Description
zinc finger with KRAB and SCAN domains 1 [Source:RGD Symbol;Acc:1560616]
Coordinates
chr12:19241792-19242305:+
Coord C1 exon
chr12:19241792-19241883
Coord A exon
chr12:19241884-19242178
Coord C2 exon
chr12:19242179-19242305
Length
295 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GGGATCTCCTGTTATTTCAGGCA
3' ss Score
5.36
Exon sequences
Seq C1 exon
CTCTCCCTGCCACCCACGTTCCTGCCCCTCAGCATGAGGGGAATCCCAGAGACCAGGCGATGGCATCTGCACTATTGACCGCAGATTCCCAG
Seq A exon
GTGAGCCATGGGCCCCTGTTCCCTCCTGAGACCCTGGATTTGCCCCTTGCTGGAGCATCTGTCATGAGCCTCAACCAGATCACCTGCTCTTGGTGTCCAGCCCACAGAAAAGCCCACTCCCCTCAGTGTTAGGATTCTTCCACCATAATCCCTTCAGTCTATCAGGGTTGGTCACGTGTTCTCTCCTAGTGTCCTACAGTCCTGCCCTCAGCTCTGTCTTTGACCTCAGGTTTGGGCAGTAGGACTATCCCTGATATTGCAGGGAGCTGAGTGTGGGGATCTCCTGTTATTTCAG
Seq C2 exon
GCAATGGTGAAGATCGAGGACATGGCCGTGTCCCTCATCCTGGAGGAATGGGGATGTCAGAACCTGGCTCGGAGGAATCTCAATAGGGACAGCAGGCAGATGAATTTGGGAACTGTGTTTTCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001335:ENSRNOT00000045379:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.968 A=NA C2=0.488
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTCCCTGCCACCCACG
R:
AAACACAGTTCCCAAATTCATCTGC
Band lengths:
212-507
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]