MmuINT0139287 @ mm9
Intron Retention
Gene
ENSMUSG00000037936 | Scarb1
Description
scavenger receptor class B, member 1 [Source:MGI Symbol;Acc:MGI:893578]
Coordinates
chr5:125757460-125761603:-
Coord C1 exon
chr5:125761475-125761603
Coord A exon
chr5:125758236-125761474
Coord C2 exon
chr5:125757460-125758235
Length
3239 bp
Sequences
Splice sites
5' ss Seq
TAGGTGCGT
5' ss Score
6.6
3' ss Seq
GCTTCCTTTTTTCTCCACAGGGT
3' ss Score
12.4
Exon sequences
Seq C1 exon
GAGAAATGCTTTTTGTTTTGGAGTGGTAGTAAAAAGGGCTCCCAGGATAAGGAGGCCATTCAGGCCTACTCTGAGTCCCTGATGTCACCAGCTGCCAAGGGCACGGTGCTGCAAGAAGCCAAGCTATAG
Seq A exon
GTGCGTACCAGGTAACCCCCCCTCTTCACCCCACCTACTCATAGCCAGTAGACCTACCGTCTCTACCTATAGCATCTTCCTGGATGTTATTCACATGGAGAGCAGTTACCCTCCTGCCTCTCACCCTCCTGCGAGATGGGAATCTTGCCTCGGTTTCTTGGACCCTTTCAGTCATTGACTCTCATTTACAAAGTCCTGTTAGAAGATGACAGTTAGGGCTGGTGAGATGGCTCAGTGGGTAAGAGCACCCGACTGCTCTTCCAAAGGTCCGGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCGTAACGAGATCTGACGCTCTCTTCTGGAGTGTCTGAAGACAGCTACAGAGTACTTACATATAATAAATAAATAAATAAATCTTTAAAAAAAAAAAAAGAAGATGACAGTTAGGCCAGTTGCTTCTCAGTGTCCTATCCCCTGCAGGTTGCTAAATACAGGTCCCTGGGCATCCCGGAAAGCCAAGAGACTCTCCTAGCCCAAAAGGTTTGAAAACTTTTTTTTTTTTTGGACTTCAAGGGCATGTAAAAGGACACACTGACTCCAGTTCAGAATAGAGAGACTGAAAATGAAGACGTTTAAACATCAGTTAAGCACCAGCTACATACTCAGTCAGGGCCTGAGGATAGAATTTCATGGTCAAGTACACAGGGTGTGCGACAGACTGCTCAATACAGTCTGAATTTAGATGGAGTCGTGTGTCCGCCCTGTGCTTTGCTGCGATGGGTGGTCCAGGTGGTGAGCCACCGAGTCAGGTATAGCTGGCGTCCTGGTTTACTTAGTAGCCATCTCGCAAGGATCCAGGACCGTACTTCTCCAAGATCTCCAGGTCCTGTAGGGATCAAGGCTCAGGAGAGAGGCTGAGCCCTACAGGGTGTGTCCCTGCCTGGGAAGGGACTGGAAGAGCTGTGGTCCCTGCAATTTGGGGTTAGCAGAGGTGAGTGAGTGTCTCAATAGAAGCTGCTATTTTAGCTTGTGAGCCAACTTGGGTGTGAGCACTTTCTTGGAGGGAGCTGGGGGTGGGGGGTGGAGGCGGGGCTTGGGGGGGCGGGGAGGGGAGGCCACAGCTCAGCTCCTGGAGGCCAGCTGACTATTTGCTGCAATGTCATTTGCTTGAGAAGCAAATAAGGCAGAACTCTGGTGACTGTGTGATTGTCCTGGTGAGTGCCACCTCCCTGGAGGAGGAAGAAGCTCTGCAGCTCAGTGGGTCCCCATATGTCCCTGGAGCTGAGAAAGGGTCCTGCCAGGAAGAGGTGGGGAGATGGTTAGTGTCTGCCAGTCATGGTGATGTTTGGGTATTGCCAGAGTGCGAGGGGACAAATGTAGGCTCCGAGCAGAGGCTCCGCAGTCCCTTTAGCCCAGATGGAGCCCATAGGTACACAGCCATAGCCCTGTCCAGACCCTAATAGAATGAACAAGATTGGGCTTACCTCTTTACTTTCCCAGCTTGGTCTAATCCTCGTTTGGCTTCAAGATTCCCCTGGGTGCCCCCTAGTCCTGGCCATGTGCTAGGGAGGGCAGTGTCCTCTGAGGATCAGCTACAGCACATGGGTCCTTGCATAGGGACCTCACCCTCCCCCCCCCGACCCCCCAGTGCCTGGCTAAGTGAAATTCGGTGGGGCCCCACACTCTGCCATGCACCTGGGTGTGGGGGTGGTCCCTAGAGGCTGCTGCTGATTGCTATAGAATGGAAACAGACGTGCCGCTAGACCAAAGGGTATTATTATATGAATAACGTCCCTCTGGGTGGATGGGCATTTCTGTAAGGCAAGGGGGTTGGGGGTTGGCAGGCAGGGTTGGCTGTCCGGCCAGCTGCTGTGAACACAGTAGCCTTTAAGAAAATGACCTGATCCTCTGCTTCTTTTTGGTCTGTCTCTCATTCTGAATTCTCCTCTGTCAGACACAGTACAGGGAGGAGCCAGGACAGAGGAGGGGAAATCTGCCCACCCGCCCTGGCTGCCCAGAGCCTTGTGGCTTTGTGTGTGTTTTCATGGGAGAGACCAAGCTACAGAGTTAACTCTTGCTTTATTCTCTGGCAACAAGGGCGTTCTGGGCCACTCACGCTGGCTTCGAACTTGTGGACATCCTCCTGCCTCTGTCTCCCGAGTGCGGAGATTCCAAGCATGCACCACTACTGTGCCTTGTGTCCCCTTCCCCATTTTACTTCTGTTTTGGTTTTGGTTTTGTGTTTTGTTGTTTTCGTTTTTTGGGTTTTGGTTTTGGGTTTTTGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTATAGACCAGGCTGGCCTCGAACTCAGAAATCTGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGCGCCACCACTGTCCGGCCTTTTACTTCTGTTTTTTTGTCTGTCCATTTGTCTGTCTGTCTGTGTGTGGTGAAGCCAGGGCCTTTTGCTTAGTGTAGTCCACCTCTGAGCTTCACCCCAGCACTTCCTGTTTTACTTCTGAGTGAGACTATCTGGAATGCTGGGGTGCTGTGTCGGGGGTGGAGGAGTGGGATGGGGGGTGCTCGTTGGCTTTGATCCAAAGAGAAGACGCCTCCCTGCAGTTTCCTTCCCTGCCACTAGGGGGATCGGTATGGGGGTTGCAGGGCAGGGGTGCCCAGTGTTCTTAAACCCGGCCTTCCATTCATTTTCCTAAGTTGGGAAGTCTTTTCAAGTCAGAGTCTCCCAACTTACCAAGCCATCCTTTCCTGTTCTGCACCCTTTGCCCAACATCCTACTGTCCCTAAGGCCCGAGGCCACCATTACAGCAGTCTGGTGAGAGTGTGTCTCTCTTACCTCTATGAACAAGAGCCAGTTTTAATAGCTGTTCCTGGCCCGTCAGGTGACAGCATTTTAAACATGTGGGCAGACATTTAAGCCATTCCTAGTTTCTTTGTGCGGCGGTGTTATCTACCCACTCCGGACTCTGCCCCCTTCACTGTAACAGGCCAGTCTCCCTGGCCTCAGTTTTCCCATCTCTAAAGGGAGAGGTTGGAACCAAGAGACCTACATGACTGAGGAGTCCCCGTGTCTATAGAGTGGCATCTCTGGGTTCATGGCAGACAGGGCTGGATGTGTCAGGAAGTGGTTTCTGTGCTGGTGGGATGTGCGGTGGGACTAGGGGAGGTAGGCAGGGCAGGGCTAGGTGACAGGCTTGTGACTCAGCTTCCTTTTTTCTCCACAG
Seq C2 exon
GGTCCTGAAGACACTATAAGCCCCCCAAACCTGATAGCTTGGTCAGACCAGCCACCCAGTCCCTACACCCCGCTTCTTGAGGACTCTCTCAGCGGACAGCCCACCAGTGCCATGGCCTGAGCCCCCAGATGTCACACCTGTCCGCACGCACGGCACATGGATGCCCACGCATGTGCAAAAACAACTCAGGGACCAGGGACAGACCTGCTGCCAAGTGAGCCTGATGGGCCACAGGTGTGCTCTTCTAAATGGCCTGTGAGCCAGGCTGTGGGAACTCTAGCTGCTGTCAGCCCCTCCTGTAGGAGCTGGCCCTGCCCAGGCTCCTGACTTCCCTCAGGAAGTCTTTCTGTCTTTCTCCATCAGTCTGAAAGCCTTAGTTCCCACAGAGGACGGATCTGTCACTCCTAGGGGCTGGGCATATGTCGGCCTCTTGTGCCAAGGCCAGGCAAGCAGCTCCAGGTCCTGACCAGTTTGCACACACACTCTGGAGCTGTATCTGGCGCTTTTTCTATCGTCTCTGCTATGTCACTGAATTAACCACTGTACGTGGCAGAGGTGGCAGGCCCCTCAGGGTCCTTATTTTTCAGGCATGGGGTCAAAGCTAGAGGTATGGGCCGTCTACACCCCCCCGCCCCCCGGCATCTAGTGTACCTCACCAGAGGGTATTCGGAGGCCCAGCATCCTGCAACCGACCCCTTTTTTCTACTGGAAGAGAAATTTTATCATCTTTTGAAAGGAAGTCATGACTGAAGCAATAAACCTTTTCACTGATTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037936-Scarb1:NM_016741:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.317
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
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: