RnoINT0168388 @ rn6
Intron Retention
Gene
ENSRNOG00000021800 | Zfp541
Description
zinc finger protein 541 [Source:RGD Symbol;Acc:1310756]
Coordinates
chr1:77973843-77977245:+
Coord C1 exon
chr1:77973843-77975694
Coord A exon
chr1:77975695-77977186
Coord C2 exon
chr1:77977187-77977245
Length
1492 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
AGATATCTTCTCATCCCCAGGGT
3' ss Score
7.34
Exon sequences
Seq C1 exon
GACTGGGCACATGCTCACCCACCAGAAGACCAAGCCCTTTGTGTGCATTGAGCAGGGTTGCAGCAAGAGCTACTGTGACTACCGCTCACTGCGCCGCCACTATGAAGTCCAGCATGGAGTATGCATCCTGAAGGAGGCTCCACCAGAAGAGGAGTCCTATGGGGACCCAACCCACAACCATGATGTGGCCAACCAGCCTCCACCCAGTGGCTTGAGGTCCCTGGGGCCCCCAGAAGCTAGGTCCCCAGGCTCTGTCTTGCCCAACCGAGACCTCCTCCGCTGTATTGTGAGTAGCATCGTCCACCAGAAGATTCCTTCTCCTGGCCCAGCAGTGGGGTCTTCTGATACTGAAGCAAGGAGCTCAGCCTGTGCCTGCCCCACCTCATTGGGGTCATCATCATGTACACCGGCCAGCACCCCAGTGGCCCCAGGAACCCTGGGCTCTGAGATTCCTGAGGAAACTCATCCCCCACGAAAGGAAGCTGCCACTGAAATGTTCACAGCTGTCCAGTCAAGAGCAGCTGAGAACAGTGCCCCTGATCCACCAGAGTCAGAGTTAGAGTCAGAGTCTCCACGACTTCAACGGCCATCCTCTCTGGAGGGCTGGCCAGAGGGCAGCTCCCTGCCTGCCTGCCTGCCTCTCTTTAGAGGCCACTCTGTCCCCTCAGGATCCCAGCCTTCCAGCCACAACTTCCAGTGGCTCCGGAACCTGCCCAGCTGTCCCAAGAACAAAAGCAGCAATGTGTTTATGGTCCACAAGCCCTCTGCAGTGGCATCCCGGGAGGGCTCTGAGGGGGGCTCTGGGCCCAGCAGTACCCCGACCTCAGTGGAGCCTTCACCCAGCCTGGGCACCAGCCAGGAGGACCTGCTGCCATTTCCTCCTGCACTCCTAAAGGCCCCTGGTGAGGCCTCCAGTGAAGTCCGGCAGGTAGCTGGGGAAGATGAAACCTGGGCTCCCAAAAAGTGCAAACCCGACTGTGAGTCATTCCCATGGCAGAGCCCCACTGAGCTAGGGCTCCAAGATGCACAGAACCCAGGTGGACTCCCCTCAGATGCCACACCCCTCTTCCGGCAGCTTTTCATGAAGTCACAGGAGTCTCTGGTAAGCCATGAGCAGATGCAGGTGCTCCAAATGATTGCCAAGTCCCAGCGGATCTTCTCCCATACCCAGGTGGCTACAGCCGCAGCCCAGAGACCAGGGCCTGAGGGCAAGCAGTCCACTCTGAAGCCATTGCAGGGGCCATGGCCACCACAAACTCTGCCACCAGTACCCACTGTAGACTCTTTCCAGATAGGCCCTGGACACTCAGAACCAGAGGGATCCCCAGTCCGCAGGAGGAAAACCATGCCTGCAGTGTCCAGAGAAACATCTCCTGGGGGCCCTAGGCGAGACACAAAAGGAGGCCCCAAAGTGGCCTCTGCACCACCATCCCTCACAGGGCCAGCTCTGCACCCCTCCCGGAATCCAGACAACTCTTCCTTGGCCAAAGGGACCTTGGACCTGGGAGACATTATCCCCAGTGCCGGCTCAAGGCAGTCCCAGTTAGGTGGAGATGAGCCATCTGGAACCCAGCTGGTTGGGAAACAGGGGCAAGGAGAGAATGGCCTGGCTTCAGGGGCCATGAGAGGTGAGAAGGGCCCAGCCTGCCCCCGAGGTGGAGGCTACAGGCTCTTCTCAGGGCACCCCAGGGCCCAGAGATTCTCAGGTTTCCGGAAGGAGAAAGTAAAGATGGATGTGTGCTGTGCAGCTTCTCCCAGCCAAGTGGCCATGGCCTCCTTCTCATCAGCCGGGCCCCTGGCAGATCCACCCAGAGACATGAAGTCCAAGCTGACAATCTTCAACAGAATCCAG
Seq A exon
GTACTGTAGCCCTCTGTCATGTTCTGGGCTGTGGCAGGGTTATGTATATGTCCTTGGATGTATAGGATTGCTTAACTGTCCAGGTACTTCCCCCACTGCAGTAGGTCTTCAACTGTGACTTTATAAGAGCACTGATTGCTGCTGTTCACTAAGTTACCTTCCCTGCTTTCCTTTGCCTTCTCCTTCCACCTAGATTTCCCTCCTTCAACTCTTGAGGGAGATAAAGGTACAGGCCTCCTCTCTTAACTGTTAACTACATGCAATGGCTATGCATTTCCCATACATACGCAGAACCCAAGTCCTTTCTGCATCATGCAGTGACTTTCTGCTCTGGGCACTTAGCTACTCCTCTTATTGAAACCAGCATCATTCCTTCCATCTCACAGCTACCACTTTGTAAACATCTACATCTTTGTTAGCCAAATGATGTTTAATGAACCCTTACAAAGTTGATGTTTTGGCAGACATTGTTATAGACACAAGTTTACACAGCTATTACTGTTGGCCAGAACACTTTATCACTCCCAGAAGATACCCTGCATCCCTTAATAATCACTCCAGTCTTTTGGTTCTTCTACCATTATCCTTCCAGCCCTGGGAACCCACAAATCCTCTGTCTCCGTGGCTTAACTGCTCTGGACATTTCATGTCAGTAGAGTCAGATGTGTGGTGGTTTATATCACATGATTAAGGTCCATTCATGTGGCAGCATCTGCCAGTGCTTCATTTTTTTAGAAATTAAAAACAAATTTTACATTTATTTAGAGTCAGGATATGTAACTTTAACTGGCCTGGGACTCGCTATGTAGTTCAGGTTAACCTTGAACTTACAGAGATCAGTTGAGATCAGCCTACCTCTGCCTCCTCTCAGTGCTGGGATTAGAGACTGTTTTGTGGGTGCATATTCTTGTTTCTCTTGGCTAGACCCAAGGACTGGAATCATCAGTCTCTTGCTCAATGTTTAAAGAGTCACCAGACTACTTTCTAGAAAGCAGCAGTTTTCTAGTGCCTCTGCTGTGCACAAGTGCCCTGTTTCTCCATGCTCTTTGCTGTGACAGTCACACTAGGCTATGCAATGATATCTGCTGGTGCTGCCACTGTCATGCCCTGGCATTGCTGATGTTAGAATCCTTTCCTGGGCTTATAGACCAAGTCTTATTGACTTATACACGCAGGTGTGCGCGCGCGCACACACACACACACACACACACACACACACACACACATTGTGTATGTACATCAGACATCAGACATCAGACATGTGACTTTCTCTTCCATTGTGTGGACTGCCTTTCCATCTTATGTGTGAATATTTGTGGGGTTGAAGCTTTCAGTTTTAATGAGTCCAGTATGTCTGTTGGGTTTTCTGCTTTGCTTTGGTGTCAAATCTGAGAAATCATTGCCCAAAGCACCATCAAGCAGGCTTCCCCAATGCTGTCTTCCTTTTTCCCTTGTCTGGCCTCTGATGGCTCAGATATCTTCTCATCCCCAG
Seq C2 exon
GGTGGAAACATCTACAGACTCCCCCATCCAGTGAAGGAAGAGAGCTTGGCAGGCGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021800:ENSRNOT00000058241:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.814 A=NA C2=0.750
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=PD(30.4=1.1)
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
Cow
(bosTau6)
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:
GCAGTCCCAGTTAGGTGGAGA
R:
CTTCACTGGATGGGGGAGTCT
Band lengths:
355-1847
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]