HsaINT0187581 @ hg19
Intron Retention
Gene
ENSG00000118156 | ZNF541
Description
zinc finger protein 541 [Source:HGNC Symbol;Acc:25294]
Coordinates
chr19:48041399-48043135:-
Coord C1 exon
chr19:48042962-48043135
Coord A exon
chr19:48041754-48042961
Coord C2 exon
chr19:48041399-48041753
Length
1208 bp
Sequences
Splice sites
5' ss Seq
ATGGTGGGT
5' ss Score
6.18
3' ss Seq
GCTCTCTTTCCATCCTGGAGATG
3' ss Score
-1.89
Exon sequences
Seq C1 exon
GTGTTTGGCACAGAGTTTTGCAAGCCGCTAAGACAGGTGCTGAGGCCAGAAGGGGACAGGCATAGTCCCCCAGGAACCAAGAAGCCCTTGGACCCCACAGCTGCAGCCCCTTTGGTGGTCCCCCAATCGATCCCCGTGGTTCCAGTGACCCGACACATAGGGAGCATGGCCATG
Seq A exon
GTGGGTGCTTGTCGGCCTGCCTCCTTCCTGCCACTGCCCGCAGCTGCTGGGGGAAGCCGTAGGAAAAACCCAAACCAGATACCACAGAAAATCTTTGACTCCAGGCTGGATGTGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGGTGGATTGCCTGAGCTCAGGTATTCGAGACCAGCCTGGGCAACATGGTGAAACCCTGTGTCTACTAAAAATACAAAAAAATTAGCTGGGCATGGTGGCAGGCACCTGTAAACCCAGCTACTCGGGAGGCTGAGGCCCGAGAATCACTTGAACCCAGGAAGGAGAGGTTGCAGTGAGCTGAGATCACAACACTGCACTCTAGCCTGGGTAACAGAGTGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAGAAAATCTTGATCCAGAAGAACCTGGTTTGCATGTTAATTCAGTCATTCAGCATTCACTGAGCCCCTCTGTGCCAGGCCCTGTGCTGGGTGGTGCTGGGGACACAGAGGTGACCACAATAGCCTGGGCCCTGCCTCCCAGGGCTCCTAGTCCAGTGGAGGAGACAGGCCTGTCCCCAGACAGTGACAACCCAGAGTGGGCAGAGCTGGGAGCAGAGGGAGCCCAGAGAGTTCCCAGGGGGCTCCTGACCCAGCCTGAGGAGGTAAGGGAGGGCTTCCTGGAGGAGGAGGTATGGGATCTGAGACCTAGAGGATGAGGAGGAGTAGGGCTGGCAGAGCGGAGAGGAGATTTTGTGGAAGTGAGAGAGAGCATGGTGAGTTACGAGTGATCAGTCTCGTAGGGCTTGTCTCTGCAGCCTGTACTGGAGGACCCCCTACTGAAGAAGCTCCTGCTGGACTCGGGGACACAGTCCGTGGACCTGAAGGTCCCCTGAGTCAGTGGCTGGGTCATTTCGGTGCTTGTCATTTGGGTGGAGCAGCATTTCTTTCTTCACCGTCACACTGTATCTCTGGGGATCTCTCTCTTTTTAAGGGCCAGTCATCTTAATGATTGAGGCTATTCTTACACAGAGTCAGGGGCTCTGCTGGGGCAGTGGGTGCAGGAGAAGGCTGCAGCCGGATCATCGCCAGGCTCAGTACGTCAGGTCTGGCTCAGGTGTGGCCAGCCTCCTTTGCCGGGCGTGCATTTCCTAGTTTCCTGTCTCTGGCCGGTCTCCTTTTCCTGCTCTCTTTCCATCCTGGAG
Seq C2 exon
ATGGAGTGGTGCAGTAGGTGGCTTCAGGCGACCACCTGTGGTTCTAAACTTCTTCAGGGACAAGAGAAAGACGGGGAGGAGCGAGACAGCAAGGAGAGCAGCCAGCAGAGAAAGCGGAAGAAGCGGCCCCCACCCTCCACGGCTGGGGAGCCTGGCCCTGCAGGATGCCACCAGAGCCGCCTGCGGTCACCCATGTTCCTGGTGGACTGCCTCCTGAAGGGCTTATTCCAGTGCTCCCCCTACACACCACCCCCAATGCTCAGCCCCATCCGGGAGGGCTCTGGGGTGTACTTCAACACCCTCTGTTCCACGTCCACTCAGGCCAGCCCTGACCAGCTCATCAGCTCCATGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000118156-ZNF541:NM_001101419:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.665 A=NA C2=0.409
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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:
AGAAGGGGACAGGCATAGTCC
R:
ATAAGCCCTTCAGGAGGCAGT
Band lengths:
353-1561
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)