HsaINT0159403 @ hg38
Intron Retention
Gene
ENSG00000179954 | SSC5D
Description
scavenger receptor cysteine rich family member with 5 domains [Source:HGNC Symbol;Acc:HGNC:26641]
Coordinates
chr19:55497880-55500412:+
Coord C1 exon
chr19:55497880-55498197
Coord A exon
chr19:55498198-55499815
Coord C2 exon
chr19:55499816-55500412
Length
1618 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
CTGCCCCACTCACCTTCCAGGGC
3' ss Score
11.12
Exon sequences
Seq C1 exon
GGTCCCCCCAGCTGCGCCTGGTGGCTGGGCCCAGCAAGTGCTCAGGTCGACTGGAGGTGTGGCATGACCAGCGCTGGGGGACCGTGTGTGACGATAGCTGGGACATGCGGGATTCAGCTGTGGTCTGCCGGGAGCTGGGCTGTGGTGGACCTCAGCAGCCAGACCCTGCTGCTGGCCGCTTTGGCTGGGGTGCGGGCCCCATCTGGCTAGATGATGTGGGCTGTGTGGGGACCGAGGCTTCACTGTCCGACTGCCCTGCTGCTCCCTGGGGAAAGCACAACTGCGCTCACAATGAGGATGTTGGGGTCACCTGCACTG
Seq A exon
GTAAGGAGGCCCTAGCTATCTGTTGACTCCAGGAGGGCTTCCTGGAGGGGAACAGTAACTAACATGGGCACTAACATTGATTGAGTGCTTCCTAAGCCCCAGCCCTGTGCTGGGTGTTTTTGCACATATAACCACATTGAAATCACATAATAAGTCTAGGGTGGTGTGTGTTATGCCCATTTTACTGATAAAGAAGCTGAGGCACAGAGAGGTTGGGTAACTTGCTCAAGATCACACAGCAACAACTAACTGGCAGATCTGGGATTCCCACTCAGAGAAGCTTCTGCTTCCTCTTCCTTCCAGGAATCAAGGAAATTTCCCACTAAGAAAGGAGCTTTAGCTTTCCTACGATGAAAGGAAGCAGGCAGGGCACTGGGAGATGGAAAGAAGCCAAAGTGAGAGCCAGTTAACATAAACTCAGGCAATGCCTGTTATTAAATTGCAGAGGCTGAGCCAGGTGCAGGGTCCTCATGCTGGGCTCATGAATGGAATGAACATGGTCTTGGTCTTTGAATAGCTCACAGCTCATGTAGAGAAATACTCTAACAAATCATTGCAAACCTGTGTGACTCGTTATAGTTTGAGGTTACCAAGACCACTGTCAGACTCAATAATTTGCTAGAAGAACTCTTAGAATCAAAGAATCTGTTACACTCAGCGTTATCGTTTATCACAGTGAAAGGATACAGATTAAAATCAGCCAAGGGAAGAGGCGCCTGAGGCAGGGCTCAGGAGACAGTAGGTGTGAGCTTCCAACTGTCCTGTCCCAGTGGAGTTATGCAGACAGCACTTCATTATCCCAGCAACGAAGTGGGACAACACACATGAGGAACTGCCAACTAGGGAAGTTCCCCCAAGCCTTGGCATCCAGAGTGTTCGTGGGGACTTGGCCACGTACATGTGGCTGACCATAAATCACACTGTTAGCATAGGCGATCTGGCATGGCCCAAGTGCCCCAGGGAAAAAAATCTCTTATCAGGCAAGGTGTTCCAAAGGCTTCGAAGTCATCTCCCAGGAGCCGGGGAAAAGGCGAAACCTTTCTTTGGGCAGGGTTAATCCTTTACTGCACACGTGTGCTAATCAGAAAGATGGAAGATGGAGAGTGGTGTCTCAAAGGATGGAGGCATCACCTCTGCTGGAAGCTACGGCTCTTCCCTCTGTCCCCGTCTTCCTGAGGGCCACGGGGGCACCACAGAAGGATTCTGAGTTCGGGAGTGGCCTGTCGGACCTGGGTACCCCACTGGTGGTCAGTAAGAATTGACAGGGAGGTAGGGAGACCTGTCAGAAGGTATAGGAAATGAGGCCCTGACTCAGAGCAGAAGCTGAGGAGATGGAGAGGAGAGGTCAGGTGTGAAAGGGTGAGGGGGTCAGTTATGTCCAGATTGTAAATGCCAAGAAGGCGGGGGCAGTGTCGGGTTTGGCTTGCCATAGGCTACCCGAGGGTCTAATATGGTGTGTGGCTCATAGGAGGTGCTCAATAAATATTTGTGACAATAAATGAATGAATGATGAATGAATGGGAACTGGGTGAGTGACTGGAGAGAAGGAGGGGCCTGGGTAGATGATCTTGTCATCATGGTGTCTCTGTCTTCTCTTCCTGCCCCACTCACCTTCCAG
Seq C2 exon
GGCCCCCAGGCCTGGACTCCATCTCAGACCCCTTCAGCTGGAGCTGGATTCCTGGACTGGGGAGAGATCGGGATGCCTGGCTCCCGGGAGAGCTGGCCACCAAGCCCTCTGCAAGTGTGACTGCCAGTGTTCTGGAGAAAACAACCACGAAGGCCCCAGGGAAAATGCCTAAGAGTACTAAGAAGTGGGTGACAAAAAATGCAAAGAGACCAACCACTCAACCCCCAGTGATGCCAACCACGAAACACTCCAGGGCCCAAAGCCCCCCAGACCTAACCTCACAGACCACTGCAGCACTGACCACTGAGGCCTCCCGAAGACCTACCTCTGAGTTTACCAGAAGGCCGACCACGGAGGCCCCCCAGAGATGGACCTCTCACACCACTGCCACGCTGACCCCTCAGGCCCCCCGAGAACGGACCACTAAGACCATGGCAATGCTGACCACTCAAGGCCCCCAAGAAATGACCTCTGAGTCCACTATCAAGAGTATCCCTCAGGCCTCCCTGGAGCCATCTGCTGAGATCCCAGAAGGGTCTCCAGAGTCACCCAAAGACCCGGCCCCCTCTCCCAGTGTTAGCACCACTGGGGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179954:ENST00000389623:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.327 A=NA C2=0.896
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.5)
A:
NA
C2:
NO
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:
ATGAGGATGTTGGGGTCACCT
R:
CAGAGGTAGGTCTTCGGGAGG
Band lengths:
357-1975
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains