MmuINT0023250 @ mm9
Intron Retention
Gene
ENSMUSG00000047228 | BC048546
Description
cDNA sequence BC048546 [Source:MGI Symbol;Acc:MGI:3039594]
Coordinates
chr6:128505086-128507647:-
Coord C1 exon
chr6:128507518-128507647
Coord A exon
chr6:128505205-128507517
Coord C2 exon
chr6:128505086-128505204
Length
2313 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
TGCTTGGCAATATTTTCCAGGTA
3' ss Score
7.01
Exon sequences
Seq C1 exon
ATTTCTGTTCAGTTAGAAGCATCTGAGAATTATGAAGCAAGCATCAACACCCAGCGTAACACCGACAGTGAAGTCCTCCAGGCTGGAGAACAGAAAACATATGTCTGGACCATTATTCCTAAGACACTGG
Seq A exon
GTAAGCAGCTGTGCCGGTCTTTCATGGATTGACCACGTTTTATCAACCTTTGTTTTCCTTAGATTTTCCAAAAAACATAATTTTCTTTGGCATCCTATTTTTAACTTCCTTTATTCATTTCTCTATATTCCACATTCTTATACTGCAATTTCTTTATTTAAAAAGACTTTGTTTTATTTCTATGTATATGCATGTGCTTGTATGGATGGATGGATGGCTCCATGTTCATGCAGGCACACAGGGAACCCAAAAGAGTGTGTTCCACTGGAACCTGAATTATAGATGGTTTTGAGCTACATGACATTAGGACTGGGAACCAAACCCAGGTCTTCTGCAAGAGCAGCAAGTGCTCTTAACCACTGAGCCCACTCTCCAGCCCCACGGCTCCTTACTATCAATACTCTGTGGAACAGATCTCCATTCGTTCACATAGAAATTATAATAAGATTAAGTGGTGGCTCCACACATCATATCTCAAATGAAGACCATGGTTTTTTTTTTATTATTAATCATTCCATCAGTTTACATCTCAAATGATATCCCCCTTCCCAGTTACCCCTCCACAAACCTCCCATCCCACCTCCGTCCTCCCATCCTCCCTCCCCTTTGCCTCTCTGAGGGGTGCTCCCTCCTCCCAACCTCTCCTGCCTCACCACTCCAGAATCCCCCCAACGCATCAAATCTCCACAAGACCAAGGGCCTCCCCCTCCTATTGCTGTCAGACACCACCATCCTCTGCAACATATGTATCTGAAGCCATGGGTCCCTCCCTGTACACTCCTTGGTTCATGAAGACCATGTTTCCTTAATGCTACCCTGATTTTTACAATTGCTGCTTCACCTGACATTCACACAAAATGCCAGTTTTACAAACATTTCTCCTCAGCCACAATCATCAATTTTTTTTAACTAAATATGCTAAACAGGCCACCAGATACCAAAAATACCAATCGTTGAGTGAGGAGCAAGTACTGAGAACTTAGCTTTAGTGCCTAACCATTTAGAAAAGTAACTTTAGAAGTCTCTGGCTGCTGATATAAAAGAAGGAGAAAGTTTAAAAGTTTAGTGAACCAGAAACTTTTAAAACCTATGTCATGAAAAGTATTTTATTTCATATTCTATATTCATTGTATTATTACATCAGTGAGAACTATAAGATTTTTTTTAAAGTTCATCTGTCATAGTGATTCACCTCAGACCATTTTTCTACCACACTCAAACTTTCTTCATTTTTATGCACTGTAAGATCTTCAAGTATCTCACTCTGGAAAGTGAGGCAGAATCCTGCACTCGCTGCTGCATTTTTGTGGCACTCAAAGGCTTTGCAAAGCAAAGAAAGAAATAAGCAAAACCCACAACAAAGAAACAGGAACAATATGTTGGTTGTGTGTACAGCACACAGATGATGTTAAGCCTTGCGAATAAGCTTTGCCAATCCTCCAATTTCTATAAACAAGGACACAGGAGATCAGTTTTGATTACATACTGTGATACCACAGAGATTGAAATCAACAAATTCCTTGCCAGCGCTCAGTTTGTATTTGGTGGCCCTTGTGCTGTATTATATTTTACTACTTCTCTTTGATCGTAGGAAACATTAGAAACCCCAGTTATTACCAGGTGTGGTGGTGGTTTTCTTTGATCCTGGGAAACATTAGGAACCAGGAATGTTGTTGCACACCTTTAGTTCCAGTCCTCAGGAGGAAGAGGCTGGCAGAGCTCTGTGAACTCTAGGCTTGGTCTATATAGTGAGCTCTAGGCCAGCCAGGGCTACATGGTGAGACCTTATCTCAGGAAGAAAAAAAAAAAGGAAGGAAGGAAGGAAGGAAGGGAGGGAGGGAGGGAGGGAGGGAGGGAGGGAGGGAGGGAGGGAGGGAAGGAGGGAGGGAGGGAGGGAGGGAGGGAAAGAAGGGAAAGAAGGGAGGGGAGGAGGGGAAGAGGAGAGGAGGGGAGGAGGGGAGGAGGGGAGGAGGGGAGGAAGGGAGGAGGGGAGAGGAACTGGCAGCTTTCTGATGTTGTGCTATTCATTGTCATTCTGTAAACAATGTCAAAGTGGTGGTACAGGTTCATAAGATATTATCTTTCTTAAAATTTGTAAGTTCTCAGGGAATTACTGACTAACTTATTGCATGGAATCCTGAAACAAGTAGAACAAGACATATTGCCTTATCTCCAGGCAGGAGAAGAGGCAGGTAGTTTGATCTAAACTTTCATGTGATGGTAAAAGTTGGCTCATCCCATTCAAGATGGGATTGATCCACCTGACGAATCTCCCACCGGAGAGGTAATATTATGCTTGGCAATATTTTCCAG
Seq C2 exon
GTAAAGTAAATGTCACTGTAGTGGCTACATCCAAACAGAGCAGGGCTTGCCCAAATGACGCCAGTAAGGAGCAAGATGTCCACTGGAAAGACACTGTCGTCAAAACCATGCTGGTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047228-BC048546:NM_001001179:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.150
Domain overlap (PFAM):
C1:
PF0020717=A2M=PD(4.4=9.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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: