HsaINT1047525 @ hg38
Intron Retention
Gene
ENSG00000118156 | ZNF541
Description
zinc finger protein 541 [Source:HGNC Symbol;Acc:HGNC:25294]
Coordinates
chr19:47538142-47539878:-
Coord C1 exon
chr19:47539705-47539878
Coord A exon
chr19:47538440-47539704
Coord C2 exon
chr19:47538142-47538439
Length
1265 bp
Sequences
Splice sites
5' ss Seq
ATGGTGGGT
5' ss Score
6.18
3' ss Seq
GTGGTTCTAAACTTCTTCAGGGA
3' ss Score
7.04
Exon sequences
Seq C1 exon
GTGTTTGGCACAGAGTTTTGCAAGCCGCTAAGACAGGTGCTGAGGCCAGAAGGGGACAGGCATAGTCCCCCAGGAACCAAGAAGCCCTTGGACCCCACAGCTGCAGCCCCTTTGGTGGTCCCCCAATCGATCCCCGTGGTTCCAGTGACCCGACACATAGGGAGCATGGCCATG
Seq A exon
GTGGGTGCTTGTCGGCCTGCCTCCTTCCTGCCACTGCCCGCAGCTGCTGGGGGAAGCCGTAGGAAAAACCCAAACCAGATACCACAGAAAATCTTTGACTCCAGGCTGGATGTGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGGTGGATTGCCTGAGCTCAGGTATTCGAGACCAGCCTGGGCAACATGGTGAAACCCTGTGTCTACTAAAAATACAAAAAAATTAGCTGGGCATGGTGGCAGGCACCTGTAAACCCAGCTACTCGGGAGGCTGAGGCCCGAGAATCACTTGAACCCAGGAAGGAGAGGTTGCAGTGAGCTGAGATCACAACACTGCACTCTAGCCTGGGTAACAGAGTGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAGAAAATCTTGATCCAGAAGAACCTGGTTTGCATGTTAATTCAGTCATTCAGCATTCACTGAGCCCCTCTGTGCCAGGCCCTGTGCTGGGTGGTGCTGGGGACACAGAGGTGACCACAATAGCCTGGGCCCTGCCTCCCAGGGCTCCTAGTCCAGTGGAGGAGACAGGCCTGTCCCCAGACAGTGACAACCCAGAGTGGGCAGAGCTGGGAGCAGAGGGAGCCCAGAGAGTTCCCAGGGGGCTCCTGACCCAGCCTGAGGAGGTAAGGGAGGGCTTCCTGGAGGAGGAGGTATGGGATCTGAGACCTAGAGGATGAGGAGGAGTAGGGCTGGCAGAGCGGAGAGGAGATTTTGTGGAAGTGAGAGAGAGCATGGTGAGTTACGAGTGATCAGTCTCGTAGGGCTTGTCTCTGCAGCCTGTACTGGAGGACCCCCTACTGAAGAAGCTCCTGCTGGACTCGGGGACACAGTCCGTGGACCTGAAGGTCCCCTGAGTCAGTGGCTGGGTCATTTCGGTGCTTGTCATTTGGGTGGAGCAGCATTTCTTTCTTCACCGTCACACTGTATCTCTGGGGATCTCTCTCTTTTTAAGGGCCAGTCATCTTAATGATTGAGGCTATTCTTACACAGAGTCAGGGGCTCTGCTGGGGCAGTGGGTGCAGGAGAAGGCTGCAGCCGGATCATCGCCAGGCTCAGTACGTCAGGTCTGGCTCAGGTGTGGCCAGCCTCCTTTGCCGGGCGTGCATTTCCTAGTTTCCTGTCTCTGGCCGGTCTCCTTTTCCTGCTCTCTTTCCATCCTGGAGATGGAGTGGTGCAGTAGGTGGCTTCAGGCGACCACCTGTGGTTCTAAACTTCTTCAG
Seq C2 exon
GGACAAGAGAAAGACGGGGAGGAGCGAGACAGCAAGGAGAGCAGCCAGCAGAGAAAGCGGAAGAAGCGGCCCCCACCCTCCACGGCTGGGGAGCCTGGCCCTGCAGGATGCCACCAGAGCCGCCTGCGGTCACCCATGTTCCTGGTGGACTGCCTCCTGAAGGGCTTATTCCAGTGCTCCCCCTACACACCACCCCCAATGCTCAGCCCCATCCGGGAGGGCTCTGGGGTGTACTTCAACACCCTCTGTTCCACGTCCACTCAGGCCAGCCCTGACCAGCTCATCAGCTCCATGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000118156:ENST00000391901:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.664 A=NA C2=0.457
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
ACAGAGTTTTGCAAGCCGCTA
R:
GTGTAGGGGGAGCACTGGAAT
Band lengths:
353-1618
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains