MmuINT0152231 @ mm9
Intron Retention
Gene
ENSMUSG00000029699 | Srcrb4d
Description
scavenger receptor cysteine rich domain containing, group B (4 domains) [Source:MGI Symbol;Acc:MGI:1924709]
Coordinates
chr5:136438793-136439300:-
Coord C1 exon
chr5:136439226-136439300
Coord A exon
chr5:136439105-136439225
Coord C2 exon
chr5:136438793-136439104
Length
121 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
CCGGCCTGTGCGCCCCGCAGGCG
3' ss Score
8.97
Exon sequences
Seq C1 exon
CTACAGGAGTTGGTGCCTCACCTTCCAGGGACACTGTGTGGCTGACGACAGCAGCCCGGGCCTCAGGGAAGAAAA
Seq A exon
GTAAGTGGCCCTGCCCGGGTCCCGCAGGGGGGTTGGGGGGAGCGGTGGGCCAAGGGCTGCAATAGGGAGGGGAGCCTGCTGTCCCAGGTCATCCCCTGGCACCGGCCTGTGCGCCCCGCAG
Seq C2 exon
GCGGAAGGCTGAGGCTGGTCGGGGGCCCGAGCCCGTGCCGCGGCCGCGTGGAGGTGCTGTACGCCGGGGGTTGGGGCACCGTGTGCGACGATGACTGGGACTTCGCGGACGCGCGGGTGGCCTGTCGCGAGGCGGGTTGCGGGCCCGCGCTAGGCGCCACGGGCCTTGGTCATTTTGGCTATGGCCGAGGCCCTGTGCTGCTAGACAACGTAGGCTGCACCGGTACTGAGGCCCGCCTCAGCGACTGCTTCCATCTGGGCTGGGGACAGCACAACTGCGGCCACCACGAAGACGCCGGAGCGCTTTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029699-Srcrb4d:NM_001160366:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.309 A=NA C2=0.019
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:
CTACAGGAGTTGGTGCCTCAC
R:
TAGCCAAAATGACCAAGGCCC
Band lengths:
256-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: