HsaINT0158811 @ hg38
Intron Retention
Gene
ENSG00000146700 | SSC4D
Description
scavenger receptor cysteine rich family member with 4 domains [Source:HGNC Symbol;Acc:HGNC:14461]
Coordinates
chr7:76400286-76401043:-
Coord C1 exon
chr7:76401008-76401043
Coord A exon
chr7:76400592-76401007
Coord C2 exon
chr7:76400286-76400591
Length
416 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
CAGCTCCACCCTCTTCACAGAGC
3' ss Score
7.14
Exon sequences
Seq C1 exon
CCAGCGCCCTACAGCCCACTCCACTGCCCTTTCAAG
Seq A exon
GTAGGTGCCCCACCCCGCCCTTCCTCACCCTCACCTGTCCGCCAGGTACTCCAGCCTCAGACAGGGAACCACAGGAAGTGATGACTAACCAGCCCCCCTTGACTCTAGATGCCCCCATCTCAGGGGAGCTGTAGTCTCCCCATTTTCCAGAAGGGATTGATCCCAAGGTTCCCATGGCTTCATGGCAAAGCGGGTAACCTGGCTGGGTCCCGTAGTGCACGTCTGTGATCCTAGCGCTTTGGGAGGCCAAGGCAGGAGGATCACTTGAGCCCAGGAGTTTGAGACCAGCCTTGGCAACATAGTGAGACCCCGTCTCTACCAAAAAAAATAATAATAAAATAAAAGGACATCCTGGAGTGGGCATGCTGGAGGTTGGACTCAGTGACCCCCTGGTGCCAGCTCCACCCTCTTCACAG
Seq C2 exon
AGCTGAGGCTGGTGGGGGGCCCCAGCCGCTGCCGGGGCCGCCTGGAAGTCATGCACGGTGGCTCCTGGGGCAGCGTCTGTGATGACGACTGGGACGTGGTGGACGCCAACGTAGTGTGTCGCCAGCTGGGCTGTGGCCTGGCACTGCCCGTGCCACGGCCCCTTGCCTTTGGCCAAGGCCGAGGCCCCATCCTGCTGGACAACGTGGAGTGCCGCGGGCAGGAAGCTGCGCTGAGCGAGTGCGGCAGCCGCGGCTGGGGCGTCCACAATTGCTTTCACTACGAGGATGTGGCTGTCCTGTGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000146700:ENST00000275560:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=95.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTACAGCCCACTCCACTG
R:
CATCACACAGGACAGCCACAT
Band lengths:
336-752
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains