RnoINT0168177 @ rn6
Intron Retention
Gene
ENSRNOG00000048101 | Zfp397
Description
zinc finger protein 397 [Source:RGD Symbol;Acc:6504280]
Coordinates
chr18:15858411-15859253:+
Coord C1 exon
chr18:15858411-15858907
Coord A exon
chr18:15858908-15859111
Coord C2 exon
chr18:15859112-15859253
Length
204 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
TTATATTGTGCTGGTTTTAGGTC
3' ss Score
9.53
Exon sequences
Seq C1 exon
GAAAGAAGAGGTTACTTGGGAAACTCCTCCCCAAGCACAAAACCCAACTGTACTAAGCTTTTTGTGAGCTATTTCAGCCCAGAATGGCTATGGAATCCAGAGCAATTTCAACTTTAAAACCTCAGGATCATCAAGAAGAATTAATACTCGTGAAAATAGAAGACAGCAGCTTTTCTTGGAGCCAGAAATGTAAACAGAATGGGAGTGCCCAGTCTTGCCAAGAACTGTTTCGCCAGCAATTCAGGAAGTTTTGCTATCATGAAACACCTGGGCCCCGAGAGGCTCTGGGAAGACTCCAGGAACTCTGCCATCAGTGGCTAATGCCAGAGTTGCACACAAAGGAGCAGATCCTGGAACTGCTAGTGCTGGAGCAGTTCCTGAGCATCCTCCCTGAAGAGCTGAAGATATGGGTTCAACAGCACGGCCCAAAGAGCGGTGAGGAAGTTGTGACTCTGCTGGAAGATTTGGAGAAAGAGTTTGATGATCCAGGGCAGCAG
Seq A exon
GTGGGAACAGAGATGATGTGTTTTGGAGAAAAAGTTGCAGTCCTAGTTGTAGTATCTTCTCTGGTTAGAACATTGTCTCTGAGGAACCATGACCTTGATGTCACATACTTACCGCCTTTACCCTTTTTCTCCCTATCCTTCATCCGTGGCAGTGGTCTTATTAACCATGTAAGAGTCTTACTAATTATATTGTGCTGGTTTTAG
Seq C2 exon
GTCCCAGATAATCCACAAGGACCATCAGTGTCATGGAAAGATTTGACATATCTCAGAACATCCCAAGATTCAACAAGCATCCAAGTCCGGCCTCTGAAGACACAGCTGAAATCCTGGAAACCTTGTCTTTCCTCTAAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048101:ENSRNOT00000071548:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.109 A=NA C2=0.354
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PU(97.9=68.1)
A:
NA
C2:
PF0202312=SCAN=PD(0.1=0.0)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGGAACTCTGCCATCAGT
R:
CCGGACTTGGATGCTTGTTGA
Band lengths:
293-497
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]