HsaINT0158816 @ hg19
Intron Retention
Gene
ENSG00000146700 | SRCRB4D
Description
scavenger receptor cysteine rich domain containing, group B (4 domains) [Source:HGNC Symbol;Acc:14461]
Coordinates
chr7:76022722-76023221:-
Coord C1 exon
chr7:76023147-76023221
Coord A exon
chr7:76023034-76023146
Coord C2 exon
chr7:76022722-76023033
Length
113 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
CGGGCCTGTGCGCCCCGCAGGTG
3' ss Score
9.66
Exon sequences
Seq C1 exon
CTACAGGAGTTGGCCCCCAGCCTTCCCGGGAGACAGCACTGCTCACCACCGCCGCCTGGGCCGCGGGGAAGAAAA
Seq A exon
GTAAGTGGCGGTGCCTGGGTCTGCGGGGGATGGGGAAGGGTAGGGCTGGGGCTCTGCCGGGAGCCGGCAGCCCCAGCCCAGCCCCTCTGGCCGCGGGCCTGTGCGCCCCGCAG
Seq C2 exon
GTGGACGGCTGCGACTGGTGGGCGGCCCGGGTCCGTGCCGCGGCCGCGTGGAGGTGTTGCACGCCGGGGGCTGGGGCACCGTGTGCGACGATGACTGGGACTTTGCGGACGCGCGCGTGGCCTGCCGCGAAGCGGGCTGCGGGCCTGCGCTGGGCGCTACGGGACTGGGCCACTTCGGCTACGGCCGCGGCCCCGTGCTGCTGGACAACGTGGGCTGCGCCGGCACCGAGGCTCGCCTGAGCGACTGCTTCCACCTGGGCTGGGGCCAGCACAACTGCGGCCACCACGAGGACGCGGGAGCGCTCTGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000146700-SRCRB4D:NM_080744:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.423 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=93.3)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GAGACAGCACTGCTCACCAC
R:
ACGTTGTCCAGCAGCACG
Band lengths:
257-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)