HsaINT0185965 @ hg19
Intron Retention
Gene
ENSG00000197056 | ZMYM1
Description
zinc finger, MYM-type 1 [Source:HGNC Symbol;Acc:26253]
Coordinates
chr1:35561420-35563167:+
Coord C1 exon
chr1:35561420-35561492
Coord A exon
chr1:35561493-35562917
Coord C2 exon
chr1:35562918-35563167
Length
1425 bp
Sequences
Splice sites
5' ss Seq
GTGGTAATA
5' ss Score
3.78
3' ss Seq
TCCCTCTTGTGTTTTTATAGCTT
3' ss Score
10.04
Exon sequences
Seq C1 exon
GAGTATTGTCATAGGCAACAGTCCAGAACTCAGGAGAATGAACTGAAAATAAATGCTGTGTTTTCAGAGAGTG
Seq A exon
GTAATAGAATTATTTAAGTTAGTTATGTTTATTCAGACCAATACGACAGCTGATTCATTCTTTTTTAATGCCTTTGAATATTGCTTTGTTTGTGTTGGGTTTTAAGTCCAGGAGAAGTAACCTGTAAGAAAATGAAAGAGAGGCCGTGCACAGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCGGATCATGAGGTCAGGAATTCGAGACCAGTTTGGCCAACATAGTGAAACCCTGTCTCTACTACAAATACAAAATTAGCCAGGCGTGGTGGCGCATGCCTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGATTTGCTTGAACCTGGGAGGCAGAGGTTGTGGTGAGCCAAGATTGCACCACTGCACTCCAGCCTGGGCAACAGAGCGAGACTCTGTCTAAAAAAAAAAAAAAAGAGAAGAAAATCAAAGAGGCTGGGCATGGTGCCTCATGCCTGTAATCCCAACATTTTGGGAGGCCAAGGTGGAAGGATCAGCTTGAGGGCAGGAGTTTGAGACCAGCCTGGGCAACATAGCGAGATCCTGTCTCTACAGAAAATTTAAAAACCAGGTGTGGTGGTGCATGCCTATAGTCCCAGCTACTTGGGAGGCTGAGGCGGGAGGTTTTTTTTTTTTTTCTGAGATGGAGTTTCCGCTCTTGTTGCCCAGGCTGGAGTGCAATGGCACGATCTTGGCTCACTGCAACCTCTGCCACCCAGGTTCAAGCAGTGCTCCTGCCTCAGCCTCCCAAGTAACTAGGATCACAGGCCCGTGCCACCACACCCAGATAATTTTGTTTGTTTTGAGACGGAGTCTCGCTCTCGCTCTGTTGCCAGGCTGGAGGGCAGTGCATGATCTCGCCTCACTGCAGCCTCCACCTCTCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCATGTGTCACCATGCCCAGCTAATTTTTATAGTAGAGACGGGGTTTCACCATATTGCCCGGGATGGTCTCAATCTCTTAAACTCGTGATCCACCCACCTTGCCTCCCAAAATGCTGGGATTACAGGCGTTAGCCACCACACCTGGCTAATTTTGTATTTTTAATTGAGATGGGGTTTCACCATGTTGGCCAAGCTGGTCTTGAACTCTGACCTCAGGTGATCCACCTGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCACCAGGTGGTGAGAGGGTCACTTGAGTACAGGGTGTCAAGGCTGCAGTGAGCCATGATCGTATCACTACACTGCCTAGAGTGCAAAAGAGGGCAACAGAACAAGACCCTGTCTCTAAAAAAAGAAAGAAAGAAAATAAAGGAATGCCTACTTAATTTTGTGTAAATAACAATTTTTTTTTCTCCCTCTTGTGTTTTTATAG
Seq C2 exon
CTTCACAGTTGACTGCAGGCATTCAGCTTTCTCTGGCATCATCTGGCGTGAATAAAATGCTTCCTTCAGTTTCAACCACAGCTATTCAGGTTTCCTGTGCTGGTTGTAAAAAAATTCTCCAGAAGGGGCAAACTGCTTATCAGAGGAAAGGATCTGCTCAACTTTTCTGCTCCATACCATGCATCACTGAATACATTTCATCTGCCAGTTCACCAGTTCCTTCTAAGAGAACTTGTTCAAACTGCTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197056-ZMYM1:NM_024772:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.280 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF110233=DUF2614=PU(1.5=4.0)
A:
NA
C2:
PF110233=DUF2614=PD(96.9=75.0),PF064679=zf-FCS=WD(100=48.8)
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:
TTGTCATAGGCAACAGTCCAGA
R:
TTTGAGCAGTTTGAACAAGTTCTCT
Band lengths:
318-1743
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)