HsaINT0159402 @ hg38
Intron Retention
Gene
ENSG00000179954 | SSC5D
Description
scavenger receptor cysteine rich family member with 5 domains [Source:HGNC Symbol;Acc:HGNC:26641]
Coordinates
chr19:55494610-55498197:+
Coord C1 exon
chr19:55494610-55494783
Coord A exon
chr19:55494784-55497879
Coord C2 exon
chr19:55497880-55498197
Length
3096 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
TTGGGTCTCTTCTACCCCAGGGT
3' ss Score
7.45
Exon sequences
Seq C1 exon
GCATGCCCCTGGGCTACGTCCCTCCCACGGCCCCCACGGACAGCAACAACTCCACGCCCAGGGAGGCTGCCTCCAGGCCCCCGTCCACCATGACGAGCCAGGCTCCAGGGACGGCAGGCGTTTCACCTCCTCCAGCCTCCCCTACTGTCCTTTGGGAGCCTGGACCGGAAGCCG
Seq A exon
GTGAGTCCCTCCATGCTCCCCAAGAAAACAGGGTCCTTCCTTCTGTTTCCTTCCCTCAGCTCTGAGACTGTCTCATGGGGGGCCTCTTGCAAAGAGAAAGGTGGAGAAGAGGAGCACAGGGGCCTCGCCCAGGACACTGAGCTGGGTTCAATGCTCTGCTGTTGCGTCTGGGAGCGTGTGATAATTCTTGAACAAGGGGTCCTAACTTTCGTCATTTACCAAGCCCCCAAAATTCTGTAGCCAGTCCTGGATAAGAGAAAGGATGCTGGGCTGAGAGTCTGCTCTATTCCCAAGCTGCACGGTGTGGCTGTAGGATCCATCATGGGGTACTCAGGCCAGCTTCAAGGAACAGCCCTGCTCAAACATTACCTTTACTTTCCAGAGTCTCTGGTTCTTTAGCAAATGTGATCAATGGTTCTGCCTGCCTCCTTTCATATATATATATATATATTTTTTTTTTTTTTTTTTTTTTTTTTTGAGAGTGGATTTAATTCTGTCACTCAGGCTGGAATGCAGTGGTGTGATCATGGCTCACTGAAGCCTCAACCTCTCAACCTGCAGGCTCAAGTGATCCTCCCACCTCAGCTTCCCAAGTAGCTGGGACTACTAATTTTTTGTATTTTTTTTTTTTGCAGAGATGGGGTTTGCCATGTTGCCTAGGCTGGTCTTGAACTCCTGATCCCAAACCATCTGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTAGAGGCGTGAGCCACCGTGCCTGGTCTCTTTCATGAGTATTGAAAGGACTGTTGTTTTAAAATATAGGTGTTATTATTACTGAGGTATGGTGAGGCCAGGATCTCAGGAGATGACAGCCACTAAAAAGATTGTGACTGACGGTTCTCAAGAGGATGGCGTGCCACACGGGGCCACACAGGGAAGCACCAGGGCCAGGCAGGAGGTAGACGGAGTGAGGGGGAAGCATGGCAGGAATCTTTTATACATTTATTTAGAGACAGGGTCTCACTTGGTTGCCCAGGCTGGAGTGCAGTGGTGTAATCACAGCTCCCTGCAGTCTCAAACTGCTGGGCTCAAGTGATCCTCCCACCTCCGCCTCCTGGGTAACACAGCTGCATGCCACCGAGCCTGGCTATTTTTTTTTTTTTTTTTTTTTTGTAGAGACAGGGCCTCACTATTGTCCAGGTTGGTCTCAAACTCCTGGCCTTAGGTGATCCTCCTGTCTTGGCCTCCCTAAGTGCTGGGATTATAGGCGTGAGCCACCCGGCCAGGTGCAGGGGTCTTTCTTGTGTTTTTTGCAGGAAGGAATAGGTGAGACAGGTTGAGCAGGCTTAGAACTGGCTGGTTTGAAGAATTTCAGTGGGGCCGGTGGGGAGGGTGGCGACTCAGAGGGTTGTCCTTAGTCATCTGGTACTTGGCCCTGGGGCAATGAGGACAGGTGCAGAATGGCCCAGGGTGTGAGAGCCCAGTGGAGAGGGTGGTTTGCACACGAAAGGCATGCTCAAGCCATTTACCATCTCTAGGAATTAGCTAACCCTGGGAGGGGCAGTCCCTCAGGATCAGGAATGCTCCAAGATGTCAAAGCATCAGAAATACAGAAAATAAAAAGGCGTGGTTAACACAGCTGTCTCCTCAAGATGGGAAAAGGCCGAACAAAAGCAGCAACTTATTTTCACCATGATCACCATTCCCAGAGGTCTCGTTCCCCTTTTCCTGAATAATAATATCAGCTAACACTGAACGAGCATGCACTGGCTCCTGGTGACTGATGCTGTTCCCAGTTCTCTCCGTGTCTCAGTCCAGGTGATGCTTACAGCCACTGTGGTGTGGATACTGATAGGTCTCCATGTTACAGATGAGGCAGCACCGCTGAGAAATGGGAGAGCCAGGATTCAAGCAAAAACACTTGTTCCAGGGCGCACGTTCTTTAAAAAACAATTGTGATAAAACATACATGACATAAAGTTTACCATTTTTACCAGTCTTTTTTTTTTTTTTTTTTTAAACAGGGTCTCGCTCTGTCACCCAGGCTGGAGTGCAGTGGCACGATCTTGGCTCACTGCAACCTCCGCCTCCCGGTTCAAGCGATTCTCCTGCCTCAGCCTCCGGAGTAGCTGGGATTACAGGCTGAGCCACTGCACCTGGCCCATGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGAGTTTCTCCACGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCTGCCCGCCTGGGCCTCCCACAGTGCTGGAATTAACAGGTGGGAGCCACCGTGCCGGGCCTGCTGCTCCCTGTCTTTTAAAGGACTTCCTCTGAGAAGCCTTCTCCAGCTTCCTCAGGCAGAATTTTTCTCACCTTCTCCTCGTTGTGTGTCTGCCTTGCCCTTTGGGTACTTCCACTACTCCCTTTAGCTCGCTGAGCTGTAATGAAGTGTGTGCATGCTACTTTCCCTGAAGACCGAGAGCTTTTCAAAGCAGAGGCTGTGCCTGACTCATAAACAACAACAAAACACCTTATTATCCCTGGTGGTCTAGTGGTTAGGAAAATAAAATCTAAGAAAGAAGAAAAAAACCCTTATTAAACCAATAATAATGAGAGAAAATTAAGGGTGGTGAACAACTGCATGGAAAAAGACTTATTTTAATTGAGGTGACATTCATGTAACATAAAGTTAACCAGTTTAAGTATACAACTTAAGTGGTATTTATACATTCAAAATGCTGTACAACCACTACTATTTGGCTACTGTGAATGGTGCTGCTATGAACATTCACATACTGGTATCTGTGTGAATACCTGTTTTCAGTTTATTCTGGGTATATCCCTAGTAGCAGACTTTCTAGATTATATGGTAATTTGATGTGTAGCTTTTTGAGGATCCTCCAAACTCTGCCTGACTCATTATCCCTCATGCCTAATGCAGAAAATGGCACAAAAAAGGCCTCATGAAATACTTGCTGCCTGGAGGAAAGGATGGATGAATGGAGGGAAGGCCTAGATGGATGAGTGGAAAGGAAGATGGGGGGAGGGAAAGGTGGATGAAGAGTCAGGAGGCTGGGCGGCTTCCCCGACTCTAATTCTTTGGGTCTCTTCTACCCCAG
Seq C2 exon
GGTCCCCCCAGCTGCGCCTGGTGGCTGGGCCCAGCAAGTGCTCAGGTCGACTGGAGGTGTGGCATGACCAGCGCTGGGGGACCGTGTGTGACGATAGCTGGGACATGCGGGATTCAGCTGTGGTCTGCCGGGAGCTGGGCTGTGGTGGACCTCAGCAGCCAGACCCTGCTGCTGGCCGCTTTGGCTGGGGTGCGGGCCCCATCTGGCTAGATGATGTGGGCTGTGTGGGGACCGAGGCTTCACTGTCCGACTGCCCTGCTGCTCCCTGGGGAAAGCACAACTGCGCTCACAATGAGGATGTTGGGGTCACCTGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179954:ENST00000389623:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.989 A=NA C2=0.327
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains