HsaINT1041610 @ hg38
Intron Retention
Gene
ENSG00000170085 | SIMC1
Description
SUMO interacting motifs containing 1 [Source:HGNC Symbol;Acc:HGNC:24779]
Coordinates
chr5:176295030-176296320:+
Coord C1 exon
chr5:176295030-176295262
Coord A exon
chr5:176295263-176296250
Coord C2 exon
chr5:176296251-176296320
Length
988 bp
Sequences
Splice sites
5' ss Seq
ACAGTATGA
5' ss Score
2.27
3' ss Seq
TGATTTCACTTGACTTTCAGGCT
3' ss Score
7.18
Exon sequences
Seq C1 exon
AACAAGGGTCAAAAATTAGAACCCATCCCTCATCGAAGACTAAGAATGGTAACAAATACCATTGAAGAGAATTTTCCTCTGGGGACTGTGCAGTTTTTGATGGACTTTGTGTCACCCCAGCATTACCCACCAAGAGAAATCGTGGCTCACATCATCCAGAAAATCTTGCTCAGTGGCTCTGAGACTGTGGATGTCCTAAAGGAGGCCTACATGCTTCTCATGAAAATTCAACA
Seq A exon
GTATGAACCGTAACCTCTGGCTGTTGGCGAATCTTCTAGGGATCTTGGACTCAGGGCATAGCTTTCTCTTGACAGGCTTTTTTAACCTAACCGTTACAGTGGGTGACTTAGCATATTAGTGTTATTTGAATTGCAAATGATAGGAAACCCAGTCCAAACAGACCTTAACTACTGCTAAAAGAGAATTTAATGGCTCGTGTTACTAGAAACCGAGGAGTGAGATGTGACTTGATTCAGTATACAAAAATGGTTACCAGGGTTCATTCTGCAGCTCTACTTCGGTTCTGTTTGGGGCTGCATGTGGTAGCCTCTCAGCCTCAGTTCTGTTTTGGGGCCGCATGTGGTAGCCTCTCAGCCTCAGTTCTGTTTTGGGGCCGCATGTGGTAGCCTCTCAGCCTCAGTTCTGTTTGGGGCCGCATGTGGTAGCCTCTCAGCCTCAGTTCTGTTTTGGGGCTGCATGTGGTAGCCTCTCAGCCTCAGTTCTGTTTTGGGGCTGCATGTGGTAGCCTCTCAGCCTCAGGCTTTTATGACACTTCCAGTGGGAAAGAGTGTCTGCTTCCTTTATAGTCACCCAAGAGTTCTGAAATTGAGTCTTGCAGGATTTAATTGGCCTAATGAGAGACATGACCATATCTTTGAGCCAATCACCGTGAACTGAGGGGTAGAACAGCACGATTGGCTAAAAAAGCCACATACTTCATTTTGGGGTTCTGGTAGGTAAAACTAGTTGGTTAAGAGTAGTGAAGAGTTGGTTTCTTAAGACAAAATTATAGTACTAAAGCTTTCCAAAAGGGGACTGGATACTGGGTAGCAAAAAACAATGAAGTTCCACTACTCTCAGATTGACATGGTATGATACCAGAAAGTGAGCAAGAGCATGGAGGATAATGGAGGATAGGAAGAGGCTTCTTCCTTCTATCACCTTCAGATCCTATCCCTTCTTCCGCTAAATTCTCCATAATTCTAATTGATTTCACTTGACTTTCAG
Seq C2 exon
GCTACATCCAGCCAATGCCAAGACAGTGGAGTGGGACTGGAAACTGCTCACCTATGTCATGGAGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000170085:ENST00000443967:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGGGTCAAAAATTAGAACCCA
R:
CTCTTCCTCCATGACATAGGTGA
Band lengths:
302-1290
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains