RnoINT0168181 @ rn6
Intron Retention
Gene
ENSRNOG00000006703 | Zfp398
Description
zinc finger protein 398 [Source:RGD Symbol;Acc:1562129]
Coordinates
chr4:77535613-77536191:+
Coord C1 exon
chr4:77535613-77535739
Coord A exon
chr4:77535740-77536077
Coord C2 exon
chr4:77536078-77536191
Length
338 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TTCCTTTTTTCCTCTTCCAGATT
3' ss Score
12.22
Exon sequences
Seq C1 exon
GTGCCTGTGGCATTTGATGATGTCTCCATCTACTTTTCCACTCCAGAGTGGGAAAAATTAGAAGAATGGCAAAAGGAACTTTACAAGAATATCATGAAGGGCAACTACGAGTCTCTCATCTCCATGG
Seq A exon
GTGAGGCTGAGTGAGCACCTTTTGAATGAGGTGCTACAGTCCCAAGTGGGCTCAGACACTTTCTCCAGTGTCCTCACTCTCACTCTTCTCATACACTGCAGAATCTAGTTTGAAGCCGAAGAAGGACAGAGCTAACCTACTACGTGTATTTCCCATACATTACATTTCTTTTATGTGCTTTCTTGAGTAGCTTTGTTGTAAATAGTTGGAGGTGGATAGATGGGAAGAAGTGATAGAGAAAAGAAATTAATTCCCTGACTGTCCGCTGCCTTGATGGCAGTTGCTGTCATACTCATTTATCTCGTTGTCATGCCTGCTTTCCTTTTTTCCTCTTCCAG
Seq C2 exon
ATTATGCCATGAATCAACCTGATGTTTTATCCCAGATTCAACCAGAAGGAGAACACAGTACAGATGACCAACCAAGGCCAGAAGCAAGTGAGATGCCTGCAGACCCCAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006703:ENSRNOT00000008743:3
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=0.821
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTGGCATTTGATGATGTCT
R:
CTTCACTGGGGTCTGCAGG
Band lengths:
238-576
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]