HsaINT0158809 @ hg38
Intron Retention
Gene
ENSG00000146700 | SSC4D
Description
scavenger receptor cysteine rich family member with 4 domains [Source:HGNC Symbol;Acc:HGNC:14461]
Coordinates
chr7:76389334-76392041:-
Coord C1 exon
chr7:76391964-76392041
Coord A exon
chr7:76390376-76391963
Coord C2 exon
chr7:76389334-76390375
Length
1588 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGT
5' ss Score
10.15
3' ss Seq
CCAGCCCTGTCCCCCCACAGGGC
3' ss Score
10.67
Exon sequences
Seq C1 exon
GCCCAGAGGAGCTGGGACTGCAAGTCCAGCAGGATGGTTCTGAGACCACGCGGGTGCCCACTCCTCGGCCCAGGGACG
Seq A exon
GTAGGTGCCCATAATCCCCTGAAAGTGGGTGGAGGCATCGGGGTCTTAAGGACCTGGATTGGGGGAGGTCACAGCCTAGGTTATAAAGCTCAGCAGATTCACACCGGGACCTGGAAGTCTTGTCCTTTTTGTTGGTCTCAGGCCTCCTTTGTAGGAATATGGTGTCCAGAAAGAAGGAGGTGAGCTTTAAACTACAGCAATCTGGAGATTTCTAGAGGTGAGATCAGAATGAGGGGATAAGGATCCTGTCCTGAGCAGAGCAATGAAAAAATTCAGAATATAGTTCTGGGAGCCCAGGGGGGTGCAGGAGACCGTGATGACCTTCAGGGGACACAATAGGATGTAACAGAGTCTCCAAACAGCCGGCCTGGGGCTGGGGTACTGGGATTATGAACAGAGGACTAGAGAGAGAGCAGACATGAAGCACCCAGTACACGTCGCGGATCACTCAAAAACGTTTGCACGCTTTCTCCCAGTCCTGAGACTATGGGTCTGGACTGATGCTCATCTTATTTATTTATTTGTTATTTTATTTTTTTGAGATAGAGTCTTGCTCTGTCACCCAGGCTGGAGTGCAGTGGCGCAACCTCCACCTCCCAGGTTCAAGCGATTCTCGTGCCTCAGCCTCCCCAGTAAGTGGGATTATAGACATGTGCCACCACACCCAGCTAATTTTGTGCGTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTGGCCAGGCTGGTCACGAACTCCTGACCTCAAGTGATCCACCAGCCTTGGCTTCCCAAAGTGGTGTGATTATAGGCATGAGCCACTGCGCCTGGCCCCATCTTATATATGTTTGAGACAGAGTCTTGCTCTGTCATCCAGGCTGGAATGCAGTGGCACAATCACGGCCACTGCAGCCTGGACCTCCTGGGCTCAAGCAATCCTCCTGCTTCAGTCTCCCAAGTAGCTGGGACTACAAGGCACACACCACCACACCCGGCTAATTTTTGTTTTGTTGTTTTGTTTTGTTTTTAGAGACAGGGTCTTGCTATGTTGTCCAGGCTGCTGTCCGGCTTCTGGGCACAAGCAGTCCTCCCTCCTCAGCCTCCCAAAGTGCTGGGATTGCAGGCATGAGCCACCGCACCTAGCGCCAATCTTCTTTTTTGTTTTTTTGAGACGAAGTCTCACTCTGTCGCCCAGGCTGGAGTGCAGTGGCACGATCTCGGCTCACTGCAAGCTCCACCTCCTGGGTTCATGCCATACTCCTGCCTCAGCCTCTCAAGTAGCTGGGACCACAGGCACCCGCCACCACGCCCAGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCCTGTTAGCCAGGATGGTCTCGATCTCCTAATCTCGTGATCCGCCTGCCTCGGCCTCCCAAAGTGCTGGAATTACAGGCGTGAGCCATTGTGCCCAGCCAGCGCCAATCTTACTTTAATTTCATGTGTCTGCCTTCATCTAGCGGCTCCTAGGGCAGTGCTCAGAGTGTCTCAGACCTCTCTTTACTGCCAACCTGACCTAGCTTGGGAGTGGCCTGGCATGGACCAGCCCCTTCCAACCCAGCCCTGTCCCCCCACAG
Seq C2 exon
GGCATCTACGTCTGGTCAATGGAGCCCACCGATGCGAGGGACGTGTAGAGCTCTACCTAGGGCAACGGTGGGGCACTGTCTGTGATGATGCTTGGGACCTGCGGGCAGCCGGTGTCCTGTGCCGCCAGCTGGGCTGTGGCCAGGCCCTCGCAGCCCCTGGCGAGGCTCACTTTGGCCCAGGCCGAGGCCCCATTCTCCTGGACAATGTCAAGTGCCGTGGGGAAGAAAGTGCTCTGCTGCTCTGCTCTCATATCCGCTGGGATGCCCACAACTGTGACCACAGCGAGGATGCCAGTGTCCTGTGCCAGCCTTCATGACCCAGCCCGCTCTGCAGACCACCTCTTCTTCTGGGAGCTGTGACCTCCCTTCCTCCTCCAGGAAGCCCTCCTCTTGTGATGACTACAGTTCACTTTGCCCCTCCTTCCCTTGCCTGGGAGAGAGCCTACCTAGACAGTGCAGTCCTGCTTGGGGGAGCCTGGCTGTACCCCCGTCCACTTACTGCGTGACCTCAGCCTGTCATCGACTGTTGTGAGCCCAATTCAGTGAAAGCTCCTGTGGTTTTGCTCAGCCAAAACCAAAACGAGGGGAAGAGGATGATTCCTAACTCTTCTGTTTGGTGGGGCTCTTTTTATAGCACCAGACTCTGCCTTCCTTGACCTAGATCCAGGAGGCTCAGGGGCTCTTTAAATGGGGTATCTCCTCTTCCCCCAACCCATCTTGGGATCCCCAAGAAGAGGGAAGGCAGGAGGGGCCTACAGCTCCTACCTTGGGCCCTCAGGGGCTGCAGAGGAACCTGGGTCCCTGTCCTGCCCTGCTCCGCGAGGGCCTGGACTAACTCAGATGGTGCTCGGCTGGACAAGGGGACTGGGGGAGGGGCCAAAGCAGGGACAGTGGCCCCTCCCTGCAGCTGGAACCAGCATCTCTGATTTATGCCGTCTCCACCACAGAGCCTCCACTTTGCAGGAGTGAAGAACCCTGGGGGCCTGTAGCCACCAGTTCATAGGTGCCAAGTCAATAAAGCATTGTCCCCCGTCTCTTATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000146700:ENST00000275560:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.010
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGGATGGTTCTGAGACCA
R:
GCATCCTCGCTGTGGTCAC
Band lengths:
343-1931
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains