HsaINT0158813 @ hg19
Intron Retention
Gene
ENSG00000146700 | SRCRB4D
Description
scavenger receptor cysteine rich domain containing, group B (4 domains) [Source:HGNC Symbol;Acc:14461]
Coordinates
chr7:76026835-76028114:-
Coord C1 exon
chr7:76028037-76028114
Coord A exon
chr7:76027150-76028036
Coord C2 exon
chr7:76026835-76027149
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-SRCRB4D:NM_080744:5
Average complexity
IR-C
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
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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
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)