MmuINT0139210 @ mm9
Intron Retention
Gene
ENSMUSG00000040722 | Scamp5
Description
secretory carrier membrane protein 5 [Source:MGI Symbol;Acc:MGI:1928948]
Coordinates
chr9:57294884-57299291:-
Coord C1 exon
chr9:57299163-57299291
Coord A exon
chr9:57295041-57299162
Coord C2 exon
chr9:57294884-57295040
Length
4122 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
ATGTGCTCCTGGGTCTGCAGTGA
3' ss Score
5.24
Exon sequences
Seq C1 exon
AGAAAGTGAACAACTTCCCACCATTGCCCAAATTCATCCCACTGAAGCCATGTTTCTACCAAGACTTCGAGGCAGACATCCCTCCTCAGCATCTCAGCTTGACCAAGCGCCTCTACTACCTCTGGATGT
Seq A exon
GTGAGTGCTGTGGGGATGAGGGAGAGGTGCTGGCCATGGGGAGGGGTGCTTGCACACCCTGCTTTCCAGCTGTAGCATCTGCATGGCCTGGGAACACCCCCTGCTGGTCCCGGCAAGCTCACTTTCACTGGCCACTTGCCTTCTGGGCCTCAGCTTCTTTCACGTAGGCCTCTTTTCTTCCCCTCCGTGTTCTCTCTTGTTCAGAGTGCGGTTTCTTTTTGCACTGTTATTTCTTTTTGCTTCTTGACCCCCTTCCCACTGGAATACTTTTCCAGGGAACCTGTGGTGCATTTGGAGAAGAGCCTTTCTTTTAAAGCCTCATGTTTGTTGATGTGTTTCTCAAAGAGAAGAGCATTCAGCTGGGAGTTAGGAGACATGGAATCTGGCTTGGGTGCCCTACTTCCCAAACAGCAGGTTCTCTATTGTAGAAAGAGAGTACAGCTCAGGGATAGCTACGGTTTCCGATAGCTGTGTGGTGTAGGGTTCTAATGCTCTGAGGATTTAGGGATGAGAGTTTAGAGGTGCCTGTTTGTCATGGTCTGAGACAGGCTAGTGGAATGGTGCTGTCATGAGGTCTATAGACTTGACCTTGCTCAGGGCAATCAGAAGATACTGCTTAGGAGTGTGAGGGAGGACAGGCTGTAGTGTGTCTGCAGTTGGCCTCTGTTACAGGTGGCACTGCCTTGACTCAGTGCCCGTGCTCAGTTGTGTCAAGAGAGTAGTAAAGAATGCTGTCTTGGGCTAGTGGGTATCTCAGTTTGGGAAGGAGGAGTGAACACTCTAGGCCCACAAGCCCAATAGACCTGGAGCCCAGGTATAGAAAAGTTGGATGTGGTGTTACACACTGTGATCCCAGTCCAGGGCAAGCTGGGAGGCCGAGGTGGGAGACAAACACCTGGTCACTGGGAAGGCTGGCTGAGTTTGGAGTACAAAGTGCAGAAACAAGAGGGACCATGCCTTTACAAGGTACATGTAAAGAAAGGCTCCCAAAAGTCGTCCTCTGACCTCCCTATGGCAAATATACACGGACACAGACGCAGATACATAACACACACCAGAGAGAGGGAGAGGAGAGAGAGACTGAGAATAAAAAGCAAGCAAACAAAAATCACCGTCTTTACAACATGCCATTCATAGGCGAGTAGTCAGTAATAGCAAAGGGTCATAGACTGTTCCATGACCTGCCTTGGCCTATGAGCAGAGAAGGGTCTCCTGCCCTATAACGTGAGAAGAGGAGAAGTTGGACAGATATGGGTAGCCTGTAGCTACTGGAAGGAAAATGAAGTTACACCTGATAGCTTTTTTCCCCCCATTAAATGAGGAGGGGACTGGAGAGATGACTCTGCAGTTAAGAGTACTGTCTATTCTTCAGAGGACCAGAGTTCAATTCCTAGCTCCAAGATGGAGGTTTACAACTGTCTATAACTCTAGGTTCTAGGCCCTCTTCTGGCCTCCACAGGTACTGCATGCAAATACAGATAACATATGCAGGCAGAATACCCATACACATAAATAATAAAAAATAAAGGTTAACAGTTTTAAAAAATATATGGAGGAGGTCTGAGGGTGGGGGTTTTGGGGAACGTGGGTGGGGTTAGCATCCTTGCCTTTGTAGCAGAAGGTGAGGATGCTAAACCCAGCCTCCAGGATCTCAGAGGCATGCACAGGGTCATCTGAGGTTTTCTATGAATTTCTAGTCCTTTCAGGCTTCTCCACTGCAATACCTTTTTTTTCTTAGGGGCATTCAGCTCAGGTAAAGATGTGCATTAAGGTCATTCTGGGTTAATGCACACCTTTAATTCCTGCATATAGGAGGCAGACACACATGGATCTCTGTGAGTTCAATGCCAGCCTTGTCTGCATAGTAAGTTCTAGGTCGACCAGAGTCATATAGTGAGAACCTATCTCAAAAGAAGAAAGAAAGGGAGTATAACAAAGAATTGCAGGCTCTATAGAGCTGGACAAGGAGAAGAGTAAAGACAGAGTGCCTCGTGGCTGGAGAAGTACTTGCTGAGTCAGGGGGTGCCCATCCCAAAGACAGAGAGGAGAATTGCAAGATACATGCTAGAGTAAGTGAGCTAGAGACGGGTGAGCCTGGAAAGAGCGATGCTAGCCAATATGATAACGGATAGTGTCTTTTCTATGTGAACAGCCAGGCCAACAGGCCAACTCTGAGTTTGGTCCTTAGAACCCATGTAGTGGAAGGAGAGCACCAACTCTGACTTTCCCATGTGTGCACCATGGCAAACACAGACACATACACATACACACATACACATACACACATACACATACACATACACATACACATACACATACACATACACATACACATAGACACAGACACACACACAGACACCACACACAGAAATTGCTGTTTTAAAAAAAGCAAACAAGGGGGCTGGTGAGATGGCTCAGTGGGTAAGAGCACCCGACTGCTCTTCCCAAGGTCCAAAATTCAAATCCCGGCAACCACATGGTGGCTCACAACCATCTGTAACATGATCTGACGCCCTCTTCTGGAGTGTCTGAAGACAGCTACAGTGTACTTACATATAATAAATAAATAAATCTTTAAAAAAAAAAAAGCAAACAAAATCAGTAAGAACAAAGCTCTAGGAAACTTTGAATCAATCAACAGGAGTGGAGGAAACACCTGATATGCACAAGAAATATCTATATTTGTTATAGGGTCCCTGAGATGGGTGTAGCTGTAGAGGTGACATAGTCAGGCTGGGTCAGAGTTAGGGGCATTCTGCCTGGCCCTGGGCTCCTGGAACTCCACCTACATGAGAAGATCTTGTCCAGAAGCTGGATTTAAGAGCTATAAATATCTCCTTAAGTCCTTGCTAGGTGCCTGTCAGGTGCCATGGTCCTGAAGAGAGATGTATCTGAGCCTTGAGACTCAGAAGGGGGAGCAGAGGTGGTTGGCTGAGGCCAAGGTTGAGCCCACCTTCCTTTGTTAACTTGCAGGTCTTCGGAGCCTCATCCAGGGTTCGAGGAAGGGCTCTCTGAGGTCTGAGGACCTGGGTGTGTGTCAGTGCTAACATTTCTGTCAAAGGAAGAGTCTTTAGACCTCTGCTGGGTGTGACTGAGTGATATGACTTCTAGGATCTTCTAGGTGAGGTGAGAAAGGAAGGAGTCTGGATCTCACACTGAGGAATTTCTAGTCTGGGTGACAGATTGGGATTGCACTTGGGGAACTGCAGGGCAGCCCAGATCTGCAGGTCAGAGGAAAGGGTCATAGGTAAGGAAGACATCTTGGAGGAAGAAGATAGTAGTCTAAGAAATGTCTCAGACAAGGACTGAGTTCCCAGCCACTGCTGTCTGCCCTACTGAAGTGCCAGGCAGGTAGCCCCATGGTTTGAAAAGATGTTTTTAGGTCTTTTTCTCCTTCTATTTCCTGTCCTTGCTTTGTAAGAAAAGATAAGATGGTCTCTTGCTTTGGGGTTAGTGATCGCTGTGGATCTGAGAGGACCAAGGGCTGACCTGTGGTCTTATGTATAGAATCCCGGTCTCTTGCATGCTAAGCTAAATTCTTAACACGGCCCTCCCAACCCCCCCACCCCCCCAACACACACATCAGAGGCCTTGCTTACTAGGATAGGACCCTGAGGCTTTGAGATCCTTCCAGGGGCCTTGCTGGGCAGAAGCTCTGCGTTCTTCTTGCTCTAGAGACTCTTGGTTGTTGGGATTTCTCAGATTCCTAAGGGTGAATTGGGGAAGTGTTGACCAAGCTCCCAGCTTGCTTTCTTATAGTCTATACTCTTGTGTGTGTGTGTGTTTCTTGTGTATTCATTGGTATGGCTTGTGGGTCCCCCCCTCCCTCTCCCTCTCCCTCTCTCTCTCTCCCCCCTCCCTCTCCCTCTCCCTCTCTTTCCCCTCCCTCTTCCTCTCCCTCTCTCTCTCTCTCTCTGTGTTTGCATTTATGCATGTATGTCCACATATGTCCATATCTTGCTGCTTGTCTGTGTTTATGCCATGTATTTGTTTGTGAGTCTATATGGAATCCCTGGTGTGTGTCTCCATGTCTGGACACTCACGTGTCTCTGTATGGACTTTGGTGTCTGTGTGTGTATCTGGTTTCTATCTCTGTGTGTGCATGTGCTCCTGGGTCTGCAG
Seq C2 exon
TGAACAGCGTCACGCTGGCCGTGAACCTGGTGGGCTGTCTCGCGTGGCTGATCGGAGGCGGGGGAGCCACCAACTTTGGCCTGGCCTTTCTCTGGCTCATCCTCTTCACACCTTGCTCCTACGTCTGCTGGTTTCGGCCCATTTACAAGGCCTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040722-Scamp5:NM_020270:3
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=0.000
Domain overlap (PFAM):
C1:
PF041448=SCAMP=PU(23.7=95.5)
A:
NA
C2:
PF041448=SCAMP=FE(29.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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: