RnoINT0081990 @ rn6
Intron Retention
Gene
ENSRNOG00000047145 | LOC102551340
Description
zinc finger protein 728-like [Source:RGD Symbol;Acc:7697243]
Coordinates
chr1:38538296-38538987:-
Coord C1 exon
chr1:38538834-38538987
Coord A exon
chr1:38538392-38538833
Coord C2 exon
chr1:38538296-38538391
Length
442 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TTCCCTTTTCCCGCAAACAGGTC
3' ss Score
10.47
Exon sequences
Seq C1 exon
GGTGTTTCCTCATTTTTTGTTTTTCAGGAAATGCTTTCATTCAGGGATGTGGCCATTGATTTCTCTGCAGAGGAGTGGGAATGCCTAGACCTTGCTCAGTGGAAATTGTACAGGGATGTGATGTTGGAGAATTACAACAACCTTGTATTCTTGG
Seq A exon
GTGAGGAAAACTTCCATGATGAATTCTTAATTAATTGTCACTATGAAACTTGTTCCCTTTGTACAATACCTCATGGGAGCTTGTGCTTCCAACAATATCTGTTTACAGGGCTACTTTTCAAGAAACTTAACATTATTCATATACCTTAGAACTATTTCTTCTGGTGTTGGCTCCCCCGCCCCCCATAAAAGTCTTTTATTAGAAAGTAAGTTGTCACATACTTCAGTTTTAAGAGTTGTCCTGGTAACTAAGGGATATGAAGCTTAGGACCTAGAAGTGCTAAGTTTCTCCTAAGGATTCTGGAGTGCCCATCAGGAAACATGTGAAAAATTAATCCCCTATACTCCTGTATTGTGTCTTCTCGTTCCTTATACACATAGTCCTGGAAAGGACCATTTTATCTCCCAGGAGCATTGCTGTTGTTCCCTTTTCCCGCAAACAG
Seq C2 exon
GTCTTGCTTCCTGTAAGCCATATCTCGTCACATTTCTGGAGCAAATACAAGAGCCTTCAGATGTGAAGGGAAGAGCAACTACCACTATGCACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047145:ENSRNOT00000071275:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.101
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=78.8)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTCAGGAAATGCTTTCATTCAGGG
R:
CTGGGTGCATAGTGGTAGTTGC
Band lengths:
230-672
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]