HsaINT0159392 @ hg38
Intron Retention
Gene
ENSG00000179954 | SSC5D
Description
scavenger receptor cysteine rich family member with 5 domains [Source:HGNC Symbol;Acc:HGNC:26641]
Coordinates
chr19:55499816-55500804:+
Coord C1 exon
chr19:55499816-55500412
Coord A exon
chr19:55500413-55500489
Coord C2 exon
chr19:55500490-55500804
Length
77 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCTAAGGGCCTTCCACGCAGGCC
3' ss Score
4.18
Exon sequences
Seq C1 exon
GGCCCCCAGGCCTGGACTCCATCTCAGACCCCTTCAGCTGGAGCTGGATTCCTGGACTGGGGAGAGATCGGGATGCCTGGCTCCCGGGAGAGCTGGCCACCAAGCCCTCTGCAAGTGTGACTGCCAGTGTTCTGGAGAAAACAACCACGAAGGCCCCAGGGAAAATGCCTAAGAGTACTAAGAAGTGGGTGACAAAAAATGCAAAGAGACCAACCACTCAACCCCCAGTGATGCCAACCACGAAACACTCCAGGGCCCAAAGCCCCCCAGACCTAACCTCACAGACCACTGCAGCACTGACCACTGAGGCCTCCCGAAGACCTACCTCTGAGTTTACCAGAAGGCCGACCACGGAGGCCCCCCAGAGATGGACCTCTCACACCACTGCCACGCTGACCCCTCAGGCCCCCCGAGAACGGACCACTAAGACCATGGCAATGCTGACCACTCAAGGCCCCCAAGAAATGACCTCTGAGTCCACTATCAAGAGTATCCCTCAGGCCTCCCTGGAGCCATCTGCTGAGATCCCAGAAGGGTCTCCAGAGTCACCCAAAGACCCGGCCCCCTCTCCCAGTGTTAGCACCACTGGGGAATCAG
Seq A exon
GTGAGTGGCCGTGAGGGGTGTGGGGAGAGAATGGGAGAGGCTGACCCTCCCTCCTGACCTAAGGGCCTTCCACGCAG
Seq C2 exon
GCCTGTTCCGGGTTCGTCTGGCCGATGGGCCCAACCGCTGTGCTGGCCGGCTGGAAGTGTGGCATGCCGGACGCTGGGGAACAGTGTGTGATGACAACTGGGACCTGCGGGACGCCACTGTGGCCTGCTGGGAACTGGGCTGTGGAAAGGTCCGGCCTCGAGTAGGCAAAACCCATTACGGCCCTGGGACTGGGCCCATCTGGCTGGATGACATGGGCTGTAAGGGAAGCGAGGCCTCACTGAGCGACTGCCCCTCGGGGGCTTGGGGGAAGCACAACTGTGACCACGAGGAAGACGTGGGGCTCACCTGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179954:ENST00000389623:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.896 A=NA C2=0.165
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCCCAGTGTTAGCACCACT
R:
GACCTTTCCACAGCCCAGTTC
Band lengths:
183-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains