HsaINT0158817 @ hg19
Intron Retention
Gene
ENSG00000146700 | SRCRB4D
Description
scavenger receptor cysteine rich domain containing, group B (4 domains) [Source:HGNC Symbol;Acc:14461]
Coordinates
chr7:76021281-76023033:-
Coord C1 exon
chr7:76022722-76023033
Coord A exon
chr7:76021359-76022721
Coord C2 exon
chr7:76021281-76021358
Length
1363 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTCTGTCCTTCCTGAACCAGGCC
3' ss Score
8.94
Exon sequences
Seq C1 exon
GTGGACGGCTGCGACTGGTGGGCGGCCCGGGTCCGTGCCGCGGCCGCGTGGAGGTGTTGCACGCCGGGGGCTGGGGCACCGTGTGCGACGATGACTGGGACTTTGCGGACGCGCGCGTGGCCTGCCGCGAAGCGGGCTGCGGGCCTGCGCTGGGCGCTACGGGACTGGGCCACTTCGGCTACGGCCGCGGCCCCGTGCTGCTGGACAACGTGGGCTGCGCCGGCACCGAGGCTCGCCTGAGCGACTGCTTCCACCTGGGCTGGGGCCAGCACAACTGCGGCCACCACGAGGACGCGGGAGCGCTCTGCGCAG
Seq A exon
GTGAGGCTGACAGCGAAGGTGAGGCTGACAGCGGGGCCGCGCACTGCGGCGTGGGAGGGGCGGGGCGGCGCCACGCGCGAGGCCTCTCTTGCGGCACTGCCGCCCGGGGAGCATGCGCACTCCGCAGAGGGGCGCCGCCCCGCCGTGCGCCCGCTCTGCGGCTGCGCGGCGGGGCGAGGCCGGAACGGAGAGCCTTCTGCAGTGGAAAATGGGGCGGGGCCTGGTGAGCGCCGCGTGGTGCAGCTGTGAGGGGCGGTGTCCGAAGGTCAGGGCTAAGGCCGATCCCAGTTCGAGAAAGGCATCAAGTCCGTAAAGGGTGGGGCCGTTTGCTCCCGGCTAAATCTAGACCCCGCAAAACTCTATTAAGCAGAGAGTGGATCACCCTTACCAGAGCTAGCGTGTGACCTTTGGGCGGAGTCAGTGGAAAGGGGTGTTTGCAGTTTGGCAGAACATTGTGAAATTCATTGATTGCTGTGGGAATTGATATCTTCACCCTCATTTGGTGCCCCAGGGCTAGTAGGCCCTACTTCCCATAGTTTTGGCCACAGAGGGTTCTGTTTTGGGGCCAAGGTTTGGAGAGGCACAACACCTATTTCTTTTTTTTTTTCTTTTGAGACAGAGTCTTGCTCTGTCACTCAGACTGGGCTGCAGTGGCACGATCATAGTTCACTGCAGCCTTAAACTCCTGGGCTCAAGCTATCCTACTCCGCTCAACCTCCAGAGTAGCTGGGACCACAAGGGGCATGCCACCGTGCCTGGCTAATTTTTGAATTTTTTTTAGAGATGAGGTCTCACTGTGTTGCCCAGGCTACTCTCGAACTCCTGGCTTCAAGCGATCCTCTCACCATGACTTTTTTTTTTTTTTTGAGACAGAGTCTCAGTCTGTCACCCAGGCTGAAGTGCAGTGGCTCACTGCAACCTCCGCCACCCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCATGCCACCACGCCTGGCTAATTTTTGTATTTTTAATAGAGACGGGGTTTCACCATGTTGGCCAGGCTGGTCTACGAACTCCTGACCTCAGGTGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCATGCCCGGCCTTACTTTGACCTCTTAAAGTGCTGGGACTACAGGTGTGAGCCACTGCACCCACTCAGTGACACAACCCGCATTTCTGATCAAGGGGAGCAGTTCTTCAGGAACCTGTGAAGTCCTTTTTGTCCCTAGGACAGGCTTTCCTGGGGAGAGCAGGAGGGGACCTGGCCCTAAGGAACATGCTTCCCATTGTGAGAGCCACCTCTTTATCTCTGTCCTTCCTGAACCAG
Seq C2 exon
GCCCAGAGGAGCTGGGACTGCAAGTCCAGCAGGATGGTTCTGAGACCACGCGGGTGCCCACTCCTCGGCCCAGGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000146700-SRCRB4D:NM_080744:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.667
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=93.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCGTGGAGGTGTTGCAC
R:
CGTGGTCTCAGAACCATCCTG
Band lengths:
318-1681
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)