HsaINT0159401 @ hg38
Intron Retention
Gene
ENSG00000179954 | SSC5D
Description
scavenger receptor cysteine rich family member with 5 domains [Source:HGNC Symbol;Acc:HGNC:26641]
Coordinates
chr19:55493595-55494783:+
Coord C1 exon
chr19:55493595-55493912
Coord A exon
chr19:55493913-55494609
Coord C2 exon
chr19:55494610-55494783
Length
697 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
ACTTACCCCCTGCTCCACAGGCA
3' ss Score
8.38
Exon sequences
Seq C1 exon
GCCCAGCACCTCGGCTGCGCCTGGCCGATGGCCCCCACGGGTGCGCCGGCCGCCTGGAGGTCTGGCACGGGGGTCGCTGGGGGTCGGTGTGTGACGACGCCTGGGACCTGCGAGACGCCGCTGTGGCCTGCCGAGAGCTGGGCTGCGGAGGGGCGCTGGCCGCCCCCGGGGGCGCCTTCTTTGGGGAGGGGTCTGGACCCATCATCCTGGACGACCTTCGGTGTCGGGGAAACGAGACGGCCTTACGATTCTGCCCAGCTCGGCCCTGGGGCCAGCATGACTGTCACCACCGCGAGGACGCCGGGGCCGTGTGTGACG
Seq A exon
GTGAGGGGGTTGTGGTGGAGGACCGGGAGGTGGGCGTGGTGGTGCTTGGAGCGGAGGGGCAAGTTCGGCGGGGGCGGGGGGGTCCCTACGCGCCCTTCCTGCCCTCTCTCCGGACTTTCCACTCCCCCATCTTATTCCCCTCTGAATCCTCACCCTGCGTCACTGGTTCTCAGCTGGGGGTGGCTTTGCCCCCAAGGGGACATTGGACAGTGTTTGGAAACATTTTTGATGGTCACAGCTGGGGGTGGGGGTGCTCCTGGCACCCAGGGGTTAGAGGCCAGGGGTGTTGCTTAGGATCCTGCAGTGCACAGGCCGCCTCCACAGCTGAGAACAGTCCAGCCCCAAATGGAAACAGAGGCGAGGATGAGCCTCAGCCCCGTGGCAGCCCTGGCTGGCCCTGCCTCCTGGCCCCCGGCGGAAGCCAGCCTTCTCCTCTGCATAAGGTCACCCCCCGCTTCTCTGCCACCCCTAAGCTACCATGCCCTCTGCTCTCTCTGTTCCCGTGCTCCGCATTCACACCCCTCTCCCCAGGTCAGGGATGTGGAAAGCGTGGGCTGTGTCTAGGGAGGAGGTTCGGCAGGAAGAGATCTCTGCGTGCAGCTGAGAGGACTGAGGAAGGATGACGCAGGAGGTGGGGGTGCCGGCTCCGGGATGGAGGGTGTGTGTGGGTGGCAATCACTTACCCCCTGCTCCACAG
Seq C2 exon
GCATGCCCCTGGGCTACGTCCCTCCCACGGCCCCCACGGACAGCAACAACTCCACGCCCAGGGAGGCTGCCTCCAGGCCCCCGTCCACCATGACGAGCCAGGCTCCAGGGACGGCAGGCGTTTCACCTCCTCCAGCCTCCCCTACTGTCCTTTGGGAGCCTGGACCGGAAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179954:ENST00000389623:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.989
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=91.6)
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:
GAGAGCTGGGCTGCGGAG
R:
AGGCTCCCAAAGGACAGTAGG
Band lengths:
347-1044
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains