MmuINT1030845 @ mm10
Intron Retention
Gene
ENSMUSG00000057969 | Sema3b
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B [Source:MGI Symbol;Acc:MGI:107561]
Coordinates
chr9:107607034-107609229:-
Coord C1 exon
chr9:107609121-107609229
Coord A exon
chr9:107607093-107609120
Coord C2 exon
chr9:107607034-107607092
Length
2028 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
CTGACCACTGTCCTAGCCAGCTC
3' ss Score
0.47
Exon sequences
Seq C1 exon
AAGGCTCCTGGTGGTGGCCCCTCCTGCCACCCCTCCACCTCAGCTCTGACATGGCCCACTGAAGGGAAGGGCAAGAGGCAAGGAGGGGAGGAACTGATCTTTCCAAAAG
Seq A exon
GTGGGCCGGGGGTCCCCTGGACCATGGTGGCCAGGCTTGGGGTTTGTGGGTGGGGAATGTCCTGACAGACCCTTGACTTTTTCCCAGATTGCCTGGGGGCAGGTGGTATACTGTTGGGGGAATTAGGCTTCCTGGGGCTCCTAGTCCTCGTGGCAGTGCCTTACCACCCCCTGGCACTAAGCTCCAGTTCTCAGAGTCTCATGACCTAGTGCCCACGTGGCCAGCGGGGGGAAGGTTGCAAGGTGGAGCCATCGTTGATTGCAAAAGCAGGTGTCAGTAGGGAGCCTGCAATCCCACCCAGCCCAGGACACTGGCATGACCGACCAGCACAGCCACCATCAAAAGGGTGTTGGGTGTCCTACGGAGCCACCACGCTACCACAGGGAGCCCAGGCATGGTGCAGAGGTGGCTCGGTAGTGAGGCAAGGTGGGCAGGCAAGTGCAGAGACTTGGTGCAACTATCCAGTTATCTCCAAAAGGAAAAGACAGAGCTTTGGTAGGCTGTACTGTCAATGCACAGTCCGCAGGGAGAACCCAAGCAGACCTGTGCTAGTGGATGTCCCCAAGATAGAGGCTCAAGCAGGAGTAGGGACCCCAGCTGCCTCTCTGGGTTTCAGACCAAGACTGCCTTATTCCAGAATCTTTAGAAAGTCCAGTTATGACACCCGGGTACTGGCATCTGAAGTGCTGCCTTTTAGGGGAGCCCCACCTTAAATCCAACAGGATGAAACCCAGCAGTAGGGAGCAGGAAAGAGATCCTCTCACCTCTCACTCTTCAAGGGAGGAGACATAGCTACGGGAGCAAGTCACCTGGCTAAAGAGGGCCAGAGGCAGCTCGTGCCCTTGAGCTGGGAAGTGAGAGCCCCCGGTTGTCAGAAAGGTGGGGGGGGGGGCCTCTGGCACTGCCTCCTGGTGTGAATACCAGCGCTGGTGCCTGGCATAAAAGAAAAGAGATTGGGTCCTTGAGTCTGGAGAACTGGAGTCAGTCTGGGCAGACCAGGGACACAGCAGGGGTGACCAGGGGCCTCCAGGCGGCACTTGCTGCTGGGTGGAAAATTGTAAACAGCCAAAGAATGTTGTTTGCTTGCATGAGGCCAGGGGAGGCTGCCCAGGTCCTTGGAGAGAGGCAGCGAGCCCAGGAGCAGAGTAGGGCCTTATCCTAGAAACCTAGGCTCCTTTCTGAACACCCCTGGCCCTTGTCCCCCAGCGGCTAGACAGGTAGGCCAAGAACACTAGATCCTAAAGCTCCTGGAGAGATAAGTCTCCCCTTATCTCTGTCTGTGTCCCCTTATCTCTGATTGGATGACGTCCAGGCGGTATTAACAAAACTGCACAGTTGCAGCGCCAAGGCACCTGTGCCATACAACCGTACAGCCGTGGCTGGGGGCCTTCTGACCCCTGAGGGCAGTCTTGGGGAGAGTGAGGCAACATCCAGCCCTTTAAAGTGCTCCCAAGACTTCAAACAGGGAGTGGTTTTCAGAATAAGCTATACAACAAAACCCTAAGTACTTCCCAGCCTGGGCACCAAAGTCAATTGTAGGAGTCCTTCCTGTCTGAAAACTGTCTGCCACACTCCTGGCCCAGCCCCTGAGAAGCAGGGGTAGGTAAAGCAAGAAGTTGAGGGCCATCCTTGATTAATGATAAGTTCGAGGCCAGCCCAGGCTATAGAAGACCCTGGCCTTCAAACAAACAAAAGCAACCCTACAAACCCCTCTCGGGTACATGGTTCTGGGTTTGATGGATAGGGCAGTCTTGCCAGCTTGGAAGAGAGCGGGAGTCCATGGGTCATTCACCTTTCCAACATCTGCCCCAAGCTCCACCCTAGCTGGGCTCTGAGGATGGGCCCACATTCTCAGCATCTCCTGAGCCTCCCCTCCCCCCTCCTCCCCCTTTCCTGCCTGGCTGTCATTGTGTGTGTGTGTGTGGGGGGGCAGACAGCTGAGGTCCAATTGGTAAGAAAGTGACAGGCTGGGGCCCAGAAGAGGAGAGGAGAGCTCCTTCCCTGACCTCTGACCACTGTCCTAGCCAG
Seq C2 exon
CTCCTGGGACCTGAGCTTGCTGTGGAGTGTACAGTCATCCCTTAGCTGTGGAGGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057969:ENSMUST00000102532:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types