HsaINT1040924 @ hg38
Intron Retention
Gene
ENSG00000156304 | SCAF4
Description
SR-related CTD associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr21:31702244-31703926:-
Coord C1 exon
chr21:31703765-31703926
Coord A exon
chr21:31702380-31703764
Coord C2 exon
chr21:31702244-31702379
Length
1385 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAA
5' ss Score
7.08
3' ss Seq
GTGTTTCTCATGCGTAACAGAGT
3' ss Score
6.17
Exon sequences
Seq C1 exon
TGTAAACCAGAATACAAGGTTCCGGGATTATATGTAATTGACTCAATTGTGCGACAGTCTCGTCATCAGTTTGGAACTGATAAAGATGTTTTTGGGCCAAGATTCTCTAAAAACATAACTGCCACATTCCAATATTTATATCTTTGTCCATCTGAAGATAAG
Seq A exon
GTATAATTAATTTTTAAACTAAAACTTGTATTCTTTAAAAAATATTATTTTAAATGTATGTTAGATATTTGGAGCCTACTATATTACCAGATAAGATTTTCATGTAGCGATGTCTGTGAGCTTGAAACAAAACAGTTTTTTTCTTCAGTGGTCATTTCGTGTTTATTTTCTTATGAGTTCTTCAGGATTATCAGTCATACTGTTGAAATATGACAGGAACAAAATTTATAGAATCAAAGAGTTTAATAGTGGTTGCCAGGGACTAGGGGTAAGGGAAACATTAGGAGCTGCTAATCAATAGGTATGACATTTCAGTTAAGCAAGATGAATAGGTTGTAGAGATCTGCTGAACAACCTTGTACCTATAGTTAACAATTCTGTATTGTACACTTAAAAATTGGCTAAGTGAGTAGATCTCATGTTAAGTGTTCTTATCACAGTAAAGTAAAATTTTTAAAAAATAATATGAAAGGCGCATCATCTTTAAAGAAGATATCGTTGGAAAGATGTGCTTGTGTAGTTGAGTAAGGAAGAAATTGTGCAGTAGGAAAAGACAGCGATCATCTGATTGTGGTTATTCCAGAAAGAAAGAGCCAATAATAGATGTTCTTCCCCAACATATAGAGATACTAAAGTTTAAGTGGTATTCATTAGCAATCAGACTACAGTATTTAATTCCTTATATATACAGTTGGCTTTACAACATACTATATAAAAGTAGAAAAACATTACAGATATAGTAGCTGACTATAAGTAGATAGGAGGAATTATACTAGTAAACATACTCAGAATAATGAAGAACGGAGACATTTACAATAAACAGCATATAAATTTCAGTGTCATAGGTGCTGTTTTTATATTCTTGGAAGAATGCTCTTGTGGGAAAAATACACCCAAAACCAAGATGATTCCTTGAGTAAAGATAAAAGTTGTGCCCATGAATAACATATATTCTCTGGATCTTCATATTTGCTTGGCCACATAATTTAAGTTTTGACTACAGGCCAGTTGCTTAAATATTTTAGCTGTTATAATTACTCTGAAGAAATTCTCCTTCATTTACTTCAAGATAGCTTTTTTTTGGGGGGTCAGTGATAGTTTATTTGTAACCATAAGTAAAATAAAATGAAAATGTCAAATAATAAATTTCTTTTTATTGTCTGGGTCTATAGTCCATCTCTGTTCCTTACTCTAGATGATACCACTGAAGAAAGACTAATTAGTTTAACCAGGTTGTAATTCTGATTTTTTTTTTTCCTTGTTTATGAAACACACATAGTATGGAAATATTAGCCTAGGGAGTTTTCCTCTCTTTTTTTTGTAAGAGTATAATCGGTTATTTATGCAAATATTTATTGTATATTTGTGTTTCTCATGCGTAACAG
Seq C2 exon
AGTAAAATAGTTCGTGTGCTGAACCTTTGGCAAAAAAATGGAGTGTTCAAAATTGAAATTATTCAACCTCTTTTGGACATGGCAGCGGGAACCAGTAATGCAGCCCCAGTAGCAGAAAATGTTACCAATAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000156304:ENST00000286835:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.004 A=NA C2=0.261
Domain overlap (PFAM):
C1:
PF048188=CTD_bind=PU(72.7=88.9)
A:
NA
C2:
PF048188=CTD_bind=PD(24.2=34.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACCAGAATACAAGGTTCCGGG
R:
TGGTAACATTTTCTGCTACTGGGG
Band lengths:
286-1671
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains