HsaINT0158813 @ hg38
Intron Retention
Gene
ENSG00000146700 | SSC4D
Description
scavenger receptor cysteine rich family member with 4 domains [Source:HGNC Symbol;Acc:HGNC:14461]
Coordinates
chr7:76397518-76398797:-
Coord C1 exon
chr7:76398720-76398797
Coord A exon
chr7:76397833-76398719
Coord C2 exon
chr7:76397518-76397832
Length
887 bp
Sequences
Splice sites
5' ss Seq
AAAGTACGT
5' ss Score
7.99
3' ss Seq
ACCCCCGCCCCCATCCCCAGGTG
3' ss Score
10.95
Exon sequences
Seq C1 exon
AATTCTTGCCAACGCAGCCCCCAACAAGGAAGATGTTAACCAGTAGAGCACCTCCTACGACACTGCCGAATGGAAAAA
Seq A exon
GTACGTAAGCATAATGTGGGCACCACCTGGGTTTTGGGAGAGGAGTCTCTCACACCCTACCCTAGGCAGTGGGAAGACAGGGATTACAAATTGAAGATGTAAAGTTAGAGAAAATGGCTGGGCATGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCCAGCGGATCACTTGAGGTTGGGAGCTCCAGACCAGACTGGCCAACATGGTGAAACCCTGTCTCTACAAAAAATACAAAAATTAGCCAGGCGTGGTGGCATATTCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGGGGATCACTTGAACCCGGGAGGCAGAGGTTGCAGTAAGATCATGCCACTGTACTCTAGCCTGGGGGACACAGTGAGACCCTGTCTCAAAAAAAAAAAAAAAAAATAGAAAATGAATGGGCGGTGAGACTGGAGCTTAATCTCACAGGAAGGTCAGATGAGCCCAAGAATGATGATCATGACTAGAAGAAGAAAATGAAAAGTGCTCTAAAAGAGGGACAGTGAAAGAGGCAAAGAAGTCCAGAGGTGGAAGAGGGTCCCGTTCCTCAGGAGATCAGGGAAGGCTTCCTGGAGGAAGAGGTGTGGGGCTGTATCTTGAGGATGTCATTTGCAGTAGATGAGAAGGCAGCACGTCCCAGGCTGCCAGGAGACAGGGAGCAGGGTAGGGGGGTTGGTTTTAGGCAGAAATGATACTATGATCCCACAAGCTACCCCCAGTCTGGACCAAGGAGGCGGTACCCTGGGCAGCGGGGTGAGCAGATGCCCAAGGGTTGTAGATCCTGGGACACCGGGCTGCCCTTGCGGTGCGGACGGGGGCAGAGGCCAGTGGGAGATGCGCCCTGACCCCCGCCCCCATCCCCAG
Seq C2 exon
GTGAGGGCAGCGTACGCCTGGTAGGGGGCGCGAACCTGTGTCAGGGCCGAGTGGAGATCCTGCACAGTGGCCTGTGGGGCACCGTGTGTGACGACGACTGGGGGCTGCCGGATGCCGCTGTGGTCTGTCGTCAGCTGGGCTGCGGGGCGGCCATGGCCGCCACCACCAACGCCTTCTTCGGCTATGGCACCGGACACATCCTGCTGGACAACGTGCACTGCGAAGGCGGCGAGCCCCGCCTGGCAGCCTGCCAGAGCCTGGGCTGGGGTGTGCACAACTGCGGCCACCACGAGGACGCGGGCGCGCTCTGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000146700:ENST00000275560:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.019
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCCCAACAAGGAAGATGTT
R:
CAGTTGTGCACACCCCAGC
Band lengths:
342-1229
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains