HsaINT0148701 @ hg38
Intron Retention
Gene
ENSG00000156304 | SCAF4
Description
SR-related CTD associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr21:31693294-31694289:-
Coord C1 exon
chr21:31694204-31694289
Coord A exon
chr21:31693485-31694203
Coord C2 exon
chr21:31693294-31693484
Length
719 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
CCTTCTCTTGAAAACATTAGGTC
3' ss Score
4.15
Exon sequences
Seq C1 exon
GAAATGGAAGTAGAACAACCTTGTATTCAAGAGGTTAAGCGACATATGTCTGATAACAGAAAGTCAAGATCTAGGTCAGCATCCAG
Seq A exon
GTAATTTATAGAAAATGTTTTTTCCAACCCTGTATATCTTAGGGGACATAGAAATTAAAATTAGATTGGGTTATTTTCAGATATTCAGAATGTTAGTAAAATAACAGTTGGTATGTTTGTATTTGTATATGTGTGTAGAAGGGGGCAGGTGAAGTATTGATGTAAAAAAAAAAACTACATCATTCATCTTACTTTTTTTCCCTATATTTAAGTTGCTCAGATGTAACGGAATTTTGAAGATATAATTCTATACATAGGTAATCAGTATGTGATATTAGAAGAACTATATTTTCAAAGTTCCATTACAGCTTTATCAGCCAGCAAAAGTGGAAAGATCACAGTAATGCTGTAATCAGAGAATGTTTTTAATTGCTGCAGAAAAGACTTTACTAAGAAGATAGGTAACAGTAGTAGCAGTGTATCTCAACTGTGAAAATTAGCTACTTAAATTACAAGGATGTAATTTTATATAGTACCAGACGGCACTGAAGATGACAGATACTTATATAAGCTGTCAACATTGTGTATTTTATTTAAATAATGTGCATGATTTCTAATTTGGGACATACTAAATCTGTAAAATGAATTCTCAGGTATTGCATTCTTACATACCCAAACATTAAATTACCTAGTTTTTGTTCTGTTTTAATTAGTATGTGCTTATATTTTCTGGTTTTTGTCTATATGCTATGCATTCTCCCTTCTCTTGAAAACATTAG
Seq C2 exon
GTCACCAAAAAGGAGGCGATCTAGATCTGGTTCTAGATCTCGAAGGTCTCGGCATCGACGTTCTCGATCTCGGTCCAGGGATAGACGCCGACATTCTCCCCGATCTCGATCTCAAGAAAGACGGGATCGAGAAAAAGAGAGAGAACGTCGACAAAAAGGCCTCCCTCAAGTGAAACCGGAAACTGCAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000156304:ENST00000286835:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.938
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAATGGAAGTAGAACAACCTTGT
R:
ACTTGCAGTTTCCGGTTTCACT
Band lengths:
276-995
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains