MmuINT0139286 @ mm9
Intron Retention
Gene
ENSMUSG00000037936 | Scarb1
Description
scavenger receptor class B, member 1 [Source:MGI Symbol;Acc:MGI:893578]
Coordinates
chr5:125761475-125764415:-
Coord C1 exon
chr5:125764269-125764415
Coord A exon
chr5:125761604-125764268
Coord C2 exon
chr5:125761475-125761603
Length
2665 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CTAGCTTGGTTGTCTTCCAGGAG
3' ss Score
7.35
Exon sequences
Seq C1 exon
AGCGGAGCAATGGGTGGCAAGCCCCTGAGCACGTTCTACACGCAGCTGGTGCTGATGCCCCAGGTTCTTCACTACGCGCAGTATGTGCTGCTGGGGCTTGGAGGCCTCCTGTTGCTGGTGCCCATCATCTGCCAACTGCGCAGCCAG
Seq A exon
GTAAGTAGGAGGGGCGGCCACGCCTCGGACTCGGCTCGGGTTTCAGCCGACCTCTGTTTCCTGCAGCTAGCTCTTGTTCTACCTCCTCTCTCGCACCCTGCAGTAACTTTTCTCTACAAGTCCTGGAAGGCCCAGGACCCTCCCAGGTCGGGGCTAGGCTGAGGCTAGGTACCCAGTCATTTGGCCAACAAGTGGGTGCCACTTGGTGCCCGCTCTGGAAAGTGCCTGCCGAAGGTAGAGGTGGGGGGTCAGGGCTGGGCTGGTTAGAGAAGCAAAGGAAAGCCAGGTTAAACCAAACAGAGAAGATAGTTTTTCCCAAGGAAAATGCTCTGGGCTGGAGTTGGGTGTGAGATGGAAGTGGGAGGAGCCACGTGTGGAACCATGAACTTAGATTTTCTAAGTCCAGAGAAAAAAGTGAAAGAAATTAGTTATAAATTTTGCTTGACCCAAATATATCAGCATATGAGGCTGAAGTTTTACATCAGCCATAGAGCACTTGTTTAGCCAGTGTGAGGCCTTGTATTCAGGCCTCAGCGCTGACAGGAAAAAAAAATAATCAAAAATAATGAAAATATTTAAAAAAGAAGAAGAAAAGAAAAGAAGGTCTGGAGAGATAGCTCAGTGATTATGAGCACTTACTGCTTGCAGGGACCCAGGTTCGATTCCCAGCACCTACCTGGTGTTCTGCAACCAACTGTAACCCTTGTTCTGTAACCCTAGTTCTGTAACCCTAGTTCCAGGTGATCTCAAGGCACACACACAGTGCATATACTTGCATGGAGAACACTCATACACATAAACTAATACAGGTGCCTATAATCCCAGCACTCAGGAAGGAAGGAGGCCAGGGGAGAAGGATCCGGTTCAAAATCATCCCTGGTTACATGTAGGGTTTGATCAAGGCCAGCCTAGGATACGTGACATCTTGTCTCCGAAAATCAATTAAACTTCAAAAAAAGAATAGTGTGGGCGACTGGAGAGATGGCTCAGCAGTTAAGAGCACTGGCTGCTCTTCCAGAGGTCCTGAGTTCAAGTCTCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCCGATGCCTGCAGAGCAACAGTGTACTTGTATACATAACATAAATAAATAAATCTTAAAAGACAAGAATAGGGCTGGTGAGATGGCTCAGTGGGTAAGAGCACCCGACTGCTCTTCCAAAGGTCAGGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACTATCCGTAACGAGATCTGACTCCCTCTTCTGGAGTGTCTGAGGACAGTTACAGTGTACTTACAATAAATAAATAAATAAATAAATAAATAAATAAATAAATCTTTAAAAAAAAACTTTAAAAAGAAAAAGACAAGAATAGTGTGGTTCAGACAGGGGTAGGGGTCACTTCCATAAAGAAAGGATGACTGAGGAATGTAACATCAGGGCATGCAGCCCCTGAAAGCAGGAAGCAAAGGGGTCATGACTAGAACCTTCGTTCCCTTCTGGCCTCAGGAGTACCGGCTCGTGCATGAGATCTTGGGGTTACGACATTGGTCAAGTCCCCTGGGGTGCTTGCTGATAGCTGTAGTTGTGAAGCAGGGAATTTGAGGACAGGACTGTGATCAGCTGTGATTCAAGAGGGCTGCTGTCTGCAAACAGGGGAGCCACTGGCCACCTTTGAACACTCGTACAAGAGCCACTCACAGGGTCCCACCTGAGATGTCCTGGGGCCACAGGCTGGGCTTTCTGTGCGTGCTTGGTGTGTGTGTTGGGGGGGTCTTCCCACCTGCTCTCCTGCAGTCAGCCAGCTGGCTGCCTTTCTTCTTTAAGGCTTGCTTGCTTGCTTGCTTGCTTGCTTGCTTGCTTGCTTGCTTGCTTTGGGAAGAACGGATCCCTGTGGAGTCCCCAGCACCCGGCTTCCCTTTCCAAACACAGGCCCCAAGTCTCTTGTCATCACCAAGGGGTGTCTGGTTGCCTCTGGCTCTCCATGTTGACTGTAGCTATGAGGATCTGGAGGACATCACGGTCTGGGCTTCCGGGCTGGTGTTCCTCCCTGCTGCTGCCCAGTGAGAACTGAGCCAGGCTTTTTCAGTCAACCATTGGAGGAGAGACCCCAAAATAGAAGGCAGGCGTCTCGCTGGGGTCTGGGGGCAAGGTTGTTTGTCCTGCGGGTTTCATCAGAGAGAGGCCAAAGAAGCCTTGTCCTGACAAAGCTAGGCCTCACCTGTGTGTTCCTGTCCTTGAGCATCTGGGGGCGGGGGGGTTAACTGCTTGCTGGTAAAGAACATACTCAGTCATACGCCATTCATAAATCAAGAGTATGTTAATGTTTCCCTCAGATTGACAAATACCATGGACTTGGAGAAGAGGTTAAGAGAGAGATTGTACCCAGTAGGCTCCAGGCCCTAGGTTCAAATCCAGCCCCACCAGACCAGACCAGAGAAATTCAAACACTCAGCAGGCCAGTCCCGCTGTGGCCACCTCCGCCACTCTCTTCCTGTCGGTGACTTTCTGCTTGCCGGACTTCCGGGGCGCTTCGCCCACAGTGCAGGGTGGAACAAGACTCTGCAATCTTGTTCTCTTCTGTCCCTTTGCTTCTGGGGGGACCCAGCGTCACCCCAGTGACACGGCATGCCATATAAACTAGCTTGGTTGTCTTCCAG
Seq C2 exon
GAGAAATGCTTTTTGTTTTGGAGTGGTAGTAAAAAGGGCTCCCAGGATAAGGAGGCCATTCAGGCCTACTCTGAGTCCCTGATGTCACCAGCTGCCAAGGGCACGGTGCTGCAAGAAGCCAAGCTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037936-Scarb1:NM_016741:11
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0113016=CD36=PD(10.2=93.9)
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: