RnoINT0168390 @ rn6
Intron Retention
Gene
ENSRNOG00000021800 | Zfp541
Description
zinc finger protein 541 [Source:RGD Symbol;Acc:1310756]
Coordinates
chr1:77977568-77979625:+
Coord C1 exon
chr1:77977568-77977727
Coord A exon
chr1:77977728-77979306
Coord C2 exon
chr1:77979307-77979625
Length
1579 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTCTGTCCTCTCTTCTTTAGGGA
3' ss Score
11.96
Exon sequences
Seq C1 exon
CCATCAGCCAAATGGGACTCCCACAGATTGGATGGAGTCAAAGAGCACTTTTGTGTGCAAGAATTGCAGCCAGATGTTTTACACAGAGAAAGGGCTGAGCAGCCACATGTGTTTCCATAGTGACCAGTGGCCATCACCTCGAGGGAAGCAGGAGCAACAG
Seq A exon
GTGAGGGGCAAATGGTGGCTTCTGTAGCTGGGTTAGACAGGCTTTGGAAGTGGATGAAAAGACAATGCCATCCATCTCAGGTTAAAGGCAGCATACTGGCAAGGATGCTGGGTGACATGAGGGCCAGCCAGGACCATCTGGCAGGCTGTAGTAGCCCCACTGGCCCTTAGTCAGTTTTGTGTACTTCCTATGTCATCAGGAGCCACTCTTCTCCCTAGCTGCTCCTTATCTTGGAGCTACCAACTCTGTATGCTCAGGTATCTGGCACAATTTTTCACTGAGGCCTGCTGGGGACAGGGGTCCCCAAAAGCCAAAATGTCCTTGGAAAGCATAATCATAGCTAGGGAACTCAGCCAAGATGGGTGCTTCTCCAGCTGCTGTTTCCTAAGAAAATCCCAAACCAGAAACACCCAGAGGTCCTCACTCTAGAAGCCTTGGTTTGAACCCACGGTCAGCACTGGCTGAGCCCTTATCAGGCCTAATGGTGTGAGTGCTGGTGACAGCACTGATATTGACAGCCCAAGTCTTGACCCTGGTCAGCAATGACCCAAAATTTGCAGAGCTGGGATGTGGGAGAAGAAGGAACTGAGGGCCCAGGCAGGAAGGTATGTCAGAGCTAAGACCTGGAAGAAGAGGAAGGCCGGCAGGGAGGAAGGAACAGTAGAAGATATGAAAGTCATTATGATTTCAGTGATGGATCTCCCTTATTATCTTTATTACTGGACCCTGTGTCAGTGCTAGGCCAGTGGTGGCTCATAAAAGACACAGGCCTCTGGGAGAACACATTATTGTTGCCACAATACTCTTGTTTCTTGCTCCCATTCTTTTTTTTCCTTTTTTTTATGATTTTCTTTTCTTTTTTCCTTTTAAGATTTATTTATTTTATTTATTTGAGTACACTGTAACTGTCTTCAGACACACCAGAAGAGGGCATCAGATTCCATTACAGATGGTTGGGAGCCACCATTAGGATGCTGAGAATTGAACTCAGGACCTCTATAAGATCTGTCCGTGCTCTTAACCACTAAGCCATCTCTCCAGCCCTCTTTTTTTCCTTTTAATACATTTTTTGTTGTTTTCTAGGTTTTTATTTGTTTGTTTGCTTGCTTGCTTATTTATTTTGTGAGACAAGGTCTCTATTATAGCCTTGCCTTACCTTGAACTTGCTATGTAAATGGGGATAACCTTTTACTCCACTTTGCTTCTGCCTCCTGTGTGCTGAGATCAAAGGCATACACCCTGTATCTGACTCTCACTCTTGGAATGCTTGGCACTTGAGCCACTGAACTGCCCCAGTGTCTTCCTATATGACTGTATGAGGAGGCCCCTGAGCCTCAGGATGGCACCATACTGAGTATGTTAGTCAGTTCTGGCTCATGTGGGTCTGGGCTATGAATAGAAGAAGGTTCTACTCAGCTTCCTGTGCTAACCCTGGGTATGGCCATGGCAGACATATATATCCTCCTCCTCTCTGTCCCTATGAGAAGCCCCATTTTCCCTTCCCTGAACAAGCTGAAGACTGAGTTAGTATAACAGATGGTCTCAGGTGACACCTGTGGTTCTGTCCTCTCTTCTTTAG
Seq C2 exon
GGACAAGAAAAAGACGGGGAAGAGAGAGACAGCAAGGAGAGCAGCCAATACAGAAAGAGGAAGAAGCGGCCCCAGCCCAAGGCCCTGTTTGCCCCTCCTGCACCCTCTGCCCTTGGGGAGCCAGGCCCAGGAGGGTGCCACCAGAGCTGCCTACGCTCTCCTGTGTTCCTGGTGGACCACCTCCTCAAGGGCTTGTTTCAGTGTTCTCCCTACACACCACCACCTATGCTTAGCCCAATTCGTGAGGGCTCCGGGCTGTACTTCAATACACTCTGCTCCACATCCAGGGCTGGGCCCCACCTTGTCAGCCCTGTACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021800:ENSRNOT00000058241:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.481 A=NA C2=0.421
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
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:
CATCAGCCAAATGGGACTCCC
R:
AAACAAGCCCTTGAGGAGGTG
Band lengths:
357-1936
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]