HsaINT0185964 @ hg19
Intron Retention
Gene
ENSG00000197056 | ZMYM1
Description
zinc finger, MYM-type 1 [Source:HGNC Symbol;Acc:26253]
Coordinates
chr1:35559515-35561492:+
Coord C1 exon
chr1:35559515-35559684
Coord A exon
chr1:35559685-35561419
Coord C2 exon
chr1:35561420-35561492
Length
1735 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAAT
5' ss Score
4.44
3' ss Seq
TATTTTTTTTTTCTTTTTAGGAG
3' ss Score
11.37
Exon sequences
Seq C1 exon
GAATCTGGAAACTGTTCTTCAGGAAGAAACCCATTAGTTTGGAACTGGAGAATTCCTTTGCATCAGATACTAAAATGAAAGAACCACTTTTAGGTGGTGAGTGTGACAAGGCAGTGGCATCACAGCTGGGGCTGCTAGATGAAATTAAGACAGAACCCGACAATGCTCAA
Seq A exon
GTAAATATTTTCCCTTATTTCCATTATTTCTAGAGCAGCATTTAACTATAAATTTTAGTTACAAAGGTGCTGAAATGATTCATTGAAAAACTCAAATCCTTATCTCCTCCAAAGCAGTTAATTAAATAATACAAGGTATATGGTGTTAAGTGCCACTACAAGTATATGTAAGAAAATTATTTGAGGAAAGATTAGACTGTTTGGAATTGGGTTTTTGCATAGGTAAAAGGATTGTTTAGGGTGTTGTGGGCCTAGCTAAGGTTAACACTTTTTTTCTTTTGCCAGATTCTACTTCCAGAGAAGGTTAACACATTTTGTTTTTGTTTTTCTTAACTTAATACAAATTACATTTTTTAATCTAAATTAATTTATGTAAATTAAAAAAAATTTTTTTAGACATATCACTAAAGAACCTATAAAGGATGAACTGACTTGAACTGTGAGTATTGTTTAAGTAGGGAAAACATTCCTTAGAATGTTTGTATATATGGCCAGGCACAGTGGCTCACACCTGTAATCCCAGAACTTTGGGAGGCCAAGGTGGGAGGATCACCTGAGCCCAAGAGTTTGAGACCAACTGGATGACAAGACCTTGTCTCTATAAAAAATACAAAAATTAGCCAGGCATAGTGGTGCACGCCTGTAGTCTCAGCTACTTCAGAGGCTACAACAGGAGGATCGCTTGAGCCCAGGAATTCAAGGAAGCAATGAGCTATGATTGTGCCATTGCACTCCAGCCTGGGTAACGAAGCGAGACCCTGTCTCTTAAAACAAAAAAAAGGAATGTTTGTATATGAACTGTGAACCAGCTGAAAGTTCTAATGAAAGAAAAAAATCACTAAAAAGGGTAATTTATTTGTAGTATTCTATTTAGAAATAGCCTAAAGTAGATTAATATTAAATAAGGGTATGCTTACCATTGAGTTGTTAACACTGGGGAATGTTACTCATCTAGGAACTATCTATTGCTTCTTCATGCCATGGACATTCAGGCATAGATCAAGTTTAGATATGGTGGCTATGAAATTGCCTCCTGCTCTGAAAAAATTGTCCTTTGTAAGAATCATTCTGCCCAATTAACAATTTCTTGGGTTAAGGTCTTTATGAAGACAATTAGCTGTTAATGATTAGAGCAAGCAGGGAAGGCTGGGTGTGGTGGCTCATTCCTGTAATCCCAGCATTTTGGGAGGGTGAGACAGGCAGATCACTTGAGGCCAGGAGTTCAAGACCATGGGCAACATCTCCACTAAAAATTAAAAAATTAGCCGGGCATGGAGGCATGTGCCTGTAGTCTCAGCTACTTGGGAGGCTGAGGCAGAAGAATCACTTGAACCCAGAAGTAGGTTATAGTGAGACGAGATCGCGTCACTGTACTCCAGCCTGGGTGACAGAGTGAGATCTTGTCTCAAAAAAAAAAGAAAAAAAAAAAAAAACAAGTAGGGAAAATAGTTGTAATTCAATATGTCTGCTCCCTATTGATAGTGAATGGAGGGATTTTGTTGACAAAGATTTTGATGTCACACCTGGATACCATAGAAAATAATGTATTGGGTGATTAGTGTTGTCAGCCAAAGAGCACCAAAAGGGTAGTGCATACCTGTGTATTTTGGTTCAATTCAGTTATACAATTCATTGACCAGACTTGACCACAATTTATCATTTTCTGTTGAATGACTGGTTGTCTTAAATTCATTGTATTCACTATTTTTAATTATTATTTTTTTTTTCTTTTTAG
Seq C2 exon
GAGTATTGTCATAGGCAACAGTCCAGAACTCAGGAGAATGAACTGAAAATAAATGCTGTGTTTTCAGAGAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197056-ZMYM1:NM_024772:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.280
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF110233=DUF2614=PU(1.5=4.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGGAAGAAACCCATTAGTTTGGA
R:
CACTCTCTGAAAACACAGCATT
Band lengths:
225-1960
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)