MmuINT0036272 @ mm9
Intron Retention
Gene
ENSMUSG00000031492 | Chrnb3
Description
cholinergic receptor, nicotinic, beta polypeptide 3 [Source:MGI Symbol;Acc:MGI:106212]
Coordinates
chr8:28504086-28510202:+
Coord C1 exon
chr8:28504086-28504968
Coord A exon
chr8:28504969-28507131
Coord C2 exon
chr8:28507132-28510202
Length
2163 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TCCCCTTTTCTCCTTTGCAGGTT
3' ss Score
13.91
Exon sequences
Seq C1 exon
TGCTGACGGACGTTTTGAGGGCTCTCTCATGACCAAGGCCATTGTGAAATCCAGCGGAACCGTCAGTTGGACTCCTCCCGCCAGCTACAAAAGTTCCTGTACCATGGATGTCACATTTTTCCCGTTCGATAAGCAGAACTGCTCAATGAAGTTCGGATCCTGGACTTACGATGGTACCATGGTCGACCTCATTCTGATCAATGAAAACGTTGACCGGAAAGACTTTTTTGATAACGGAGAGTGGGAGATACTAAATGCAAAGGGGATGAAGGGCAACAGAAGAGAAGGCTTTTACTCCTATCCGTTTGTTACCTACTCTTTTGTTCTGAGACGCCTGCCCCTGTTTTACACCCTCTTTTTGATAATCCCCTGCCTGGGGCTGTCTTTTCTCACGGTCCTGGTGTTCTACCTACCCTCCGACGAAGGGGAAAAACTCTCCTTATCCACCTCGGTTTTGGTTTCTTTGACAGTGTTTCTTTTAGTAATCGAAGAAATAATCCCGTCTTCTTCAAAAGTCATCCCTCTCATTGGGGAGTACCTCCTCTTCATTATGATATTTGTCACGCTGTCTATTATTGTCACGGTTTTTGTAATTAATGTCCACCACAGATCTTCCTCAACGTACCATCCCATGGCCCCCTGGGTGAAGAGGCTGTTTCTGGAAAAACTCCCGAGATGGCTTTGCATGAAGGACCCCAGGGACCGCTTCTCTTTCCCCGATGGAACGGAGAGTAAGGGAACCGTGAGGGGGAAATTTCCAGGGAAAAAGAAGCAGACTCCTACCAGTGATGGAGAAAGAGTTCTGGTCGCTTTCCTGGAGAAGGCCTCTGAGTCCATCAGATACATCTCGAGGCATGTGAAGAAGGAACACTTCATCAGTCAG
Seq A exon
GTGAGTGTTCTGCCAGGTGGGAAGACTGTAACTGAAGGAGGTGTGCGTTACAGCAGACGGTGCTCTTTGTTAACAATGGCTACTCTCTGCACACAAACCATATAGAACAAGCCCAACAAGTCAGACGAGCTTTAGCATTAAAATTTTAAAGAAAAAAAATTCACAGAAGTATAATGACTAAAAACAAGCAGTTACAGATTCAGCGCTGTTCATCATAATCCCTCAGATCTGTTTTCAAGAACTCAATTGCACCTTTAAATGGGTTGTCCTGGTCTTACCTAGTGTACTCATTATAGAAAACAAGAGTGAAGCTGAGTGATTCGATCCTGGGATCCTGGCTACTCAGGAAGCTGGGGGTGCCAGCAGTTTGAGATCAGCAAGGTTCATGGATCGAGAGTCTGTTTCAAAACCAGGTTTAGAGGCACCGCGGTTCTGAGCACAGACCTATCTCTATTCCGTGGGACAGGTTACTTTGCCAGACCTTTGTTTTTCTGGAGCCTACCTTGAGGAGCATGATGATGAAGCCACAACAAAAGCATCCTTTATCTTCACACCAACTGCAGGCAAGGCGAAGTCATTTTGCTCGAAAAATTCTTGAAAAATTGGCCAAGGTTCTCACACAGGCTTATGAAAAAGCATGCTTTACTATTTACTGTGTCTTCAGAGGTTCAGCCTGGGCTCGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCTCTCCCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCAGAGCTGAGGACTAAACCCAGAGACTTGGCGCTTGTTAGGCAACCACTCTACCACTGAGCTAAATCCCCACCCCCTGTCTTTCTCTCTTAACTGTTCATCATATTTTTTCATACAATTATAAATTTTGATTAAAGAGACTAGGGAAATACCAGCTCATACAGTTATACTTCAGCTATTAGGGAAGGAATTTCTGTTTTATTTCTTTGCATCTTTTGTAAATATTAGCAAAAACACTTAAGTGGGATTTTTTTTAAAATATGACCAGGACACAGACTTTGGGAAACTCAAAGACAAGCGGAACACAACCATTAATAATCCCATTACCTAAGGGATTATGAATTATTGCAGTAAAATGCTAATTTTAACATTTTACTGTCCTCTTGCATGTGTGATTTATGCTACGGTTTTGTTTCTAGACTTGGGAACCTTAGGACAGCGTGACGCCTCCCTCCTGTGAGTGGGCAGGCCTGGTGTTCTGTTCCACCTTTACTAAGTCCTTGTTTACAGGCACCGCAGTTGGAGATACTGAGCACACTGACTGATTAGGAGTTCCCCAGACAGAGTTTTGGTTTCATGAGGCTCAGGGGATCTGCTGCTCATACAGTTGTGAGATTCCTGGGAAGATGGTACCCTGTGTCCCTAGAACACAGAAGGATCTCTCCTTCCTCCAGCTTCAGACCAGGTGCAGAAACTGTACTCTGTCCCTTGAAAGGTGAGCCCCCATGCTTCTTTCACAGATTTTCTCAGCCCATGGCTTTCTATTTCCTGGACCTGCTGCTCCAGGCTGGTACCCATTCTCCTGCAATGTCTCTGCCTAACTAAATAATTCATAGACCCCTTTCTTACAATACCTGCCATTTTTTCTCTTTCTCAGTGCTGTCTACTAGATCATTAGGAGCCACACCCACTTGTGGAGTAGGAGGAAAATCCCATGACAGTTAATTACAAGTGCTTTAAAGACATTGGTTTGTCAGGAGGCAGGCAGTGGCTGGACCATAAAAAAAAAAGTAAAAAAATATAAAAGTAAAAACGACATCAGTTTGTCATTGGTTTCATAGGAGTACCAGGAAGCATTGTATAAAAATAAAATCAGTTGCTTTATTTGTGTTCGATCAGCATTATCTCCAAGTATCCAAATAATCTTGTAGTTTCTGTTTTTACAACTTCACTGTTGAAAAGTGTTCCTAAACAGTCAACTTGCAAGCTATTTTCTGGAGGTGTGATGAACAACTTCTCTGGATAGAATCCAAGCCTACACCAACAGTGATGTGTAGATACATTTGAAAACTTAAAAGTGAGACAAATCCAATATTGCTCTATTTGCAACCCTTGATGAGTTCAGCCTCTTGAGTGAAAGATCCCCTTTTCTCCTTTGCAG
Seq C2 exon
GTTGTTCAAGACTGGAAATTCGTGGCTCAGGTTCTTGACCGCATCTTCCTCTGGCTCTTTCTGACAGCTTCGGTTTTGGGCTCTGTCCTGATTTTTATTCCAGCCTTGAAGATGTGGATACATCGTTTCCATTAGGAACTGCTCTCTGGATCCATGTAGAAGACACACATAGAGAGAATCCCACCTAGAACTGAGGGCTGCTGGTGTGTTCACAGAAAGGAGTTGCATGCAACAGTTGTGGTGCCCTTGCCTTGTCCTGGGAGCCTTCTGTGACTGGAGGAAACTGAGAAAACGTGGGTTTGAGCTAGTGTGATGGTGGCTGCCATTAGAGATGTATTTGGGCAATTCAGAGAAGTCTCCATGTCATGTTGTTGTGTGGGAGGCTCCGAAATGCTCCATTTGCCTATCCCTGAACTACTGCATCTGCCCATCCCCCAGACTTCTACATCTGCTCATCCCTAAACTCTTGATTTTGTCCATCCACTGAACTCCTAGTATCTGCCCAGCCCCTTATCGACTTGTCTGCACACTGGGGCCATGTGGTACTTCTCTAGCAGTGTGGTTGAACACGTTTTGACAACAGTTTCAGGAATTACACAGGTACAACTCTTGCCACACAGGTCAAAGATGCCACTTGTCAACAAATGTCCCATAAATAGGGTCATTGAAGATGACCTTGAATGACTATGACAGTTCTCTAAGGCAGGGGTTATTGGAAGTTTGTTCACTGCATTGTAAACTTTTCTAATACAGGTAGGAACTACACCAGAAAAATAGCCATTAGCTATTAGAACTGCATTCATTAATGCATGTCTTTTTTTTTTTTCTCTTAGAAAATTAAAAGTGTTAAATGTTCTTTGATTATGGTTTTGGCTGGTGTCTTAGGCAGTGTTCTATTACTGTGAAGAGACACTGTAACCATGGCAACAGGTCAGGTGCAGAGGTTTAGTTCACTTTCATTACGGTGGGAAACATGGTGGCACTCTGGCAGATATGGTGTTGGGAGAGGTAGCCTAGAGTTTTACAGCAAGAGAGAGACTGGTGTGGGCTTTTGAAACCCCAAAGCACACCCCCAGTGACATACTTCCCCCAACAAATCTACACCTCTGGATCCTTCTCAAGGAGTGACAATCCATGATGACTAAGTACTAAAGTATGGGAGCTCATGGGGGCCATTTCTATTCAAGCCACCACAGACAGAACCGGTTTTCACAGAGTTTTCTGCCTCCACCTGTGTCCCCTCTCCCTGTGTCTCCCTCCTTTCCTCATCCCACCCCATGCTCCTCCAGGACAGTCAGGAAGTGTTTATCAGATTTACTTTGCTGCCGTTGCTTCTGAGTCCTTCCTGGGCTTTGTTAAAGGAGTTTGTTCTTCCACCTCAGTGAAACCCCATGTGCTCTGTTTTATTTGAGACACGGTTCTTCTAAGCAGTTTATCCCTGAGATTTAAAAAACCCTAATCTAAGATTTTATTTTTAGATTACTATAACTGCAACATTCAGTAAGCGCTGCGTTCTCTTATTCCTACTAGTCTGATTATTTTTTTTCTTCCTAAATAGCTTAAGCTTTTCTTATCTTCAGTCTTAGACATGTCACACTGTGCCTGAGCAGAGAATGATACCCCCATCCATCTCTATCTCTATTCCCTCCACCCTCCCCTTCTCCTCTCCTCTCTGCCATCTCCTTCTCTCTGCACGCGATGACTAGTGTCTTCAAGCTATGCAGATTCTTTTCTATTTCTCTTACTATCTCTGTTCTGCATTTTCTCTCTTTGTCTCTAAAAATTTCTGATAAAATTTCTTGTCATTGTTGGGCCTGTACTCCTTGTTTATTAACTAACCGGTTGACTCTTCTTTCATACTTTTAAAATTCTTTAATTAATAGTTTCTTAATTCTTTGACAATTCCATACAACATATTTTGATCCTATTTACCCCAAATTCCTCCCCTGTAACTTCTCCTAGACCCACTCCCTCACCCTATCCCCCCACATCAGGTCCTTATTATTTATTTTTAAATGCCCCCCTCCCCTGAGTCCAATTTGTGTTGCCTGCATACTCCGGTGTGGTCCCAGCCTTTGGTCCCAACTCTGCAGCTGGTTCCTCTCTAGCTGTATCAGTCTGTGTGAGCAAGGGAGGGTAGGAGCTCTTGCTGATAGCACAGCGGGAGACTCTGCGCTCAGACTACCAGCATCATGCTTCCAACCCTGGCAAGCAGCCTGCATGAACCCCTCACTGCCCATGGCGGGGTCAGCCCTTGGTCAGACTTCTCTAACTAGTCTTTTGTTTGGACTCTTCCAATGGTGTTTAAGTGCCTTTGTAGCGGGAATGCTGTAAACCCTGATCTGGAGTTCCCACTGAGTCCAACCACAGCCAGTCGAAGGAGAATCTCTGCTTCAGGTTCTTTAGATCGCCTTGCACAGACTACACGGCTCTCCCACCTCGCTGCCAATAGTGTGCCCACAAGATCCAGCACACGAGATGGATTTTTAAAGAAATGGATAAACACAGTGGAACAAGAGCTAGGTCACACAGATTGCTGGTCCTAGCTCTGTGGCTAACCAGTGGTGTGAGCAGTGGGCCTTACACACGCTGTCTCCCTGAGGACTTTTTAGCTTGTGGGTCAGCAGAACGAGGTGAGCATTCGTGACCTTTGAAGTTCTCCTCAGTCCTGTACTCTATCTTTTGGAGGTTTGCTATGGAGCTTCCTCAGTGTTCAACCCCATGGTCCTCACAGTCGCATTGTTCCTTGCTGGGCAGGTAGTGTTGAAGGGTGTGTGTGGTCTGCTCTGTGGCTCCCTGAGGGTAGACATTGTGATAAAAATCAAGGCTTAGCTATGACTTCCTGAATGATACTGTGGATAAAAGAACGAATAGTTATTATTCCCCCTCCTCCAGGTTGATTTTAATTCATCACATTTGATGTGTGATTACACTAGGAAAAGTGCAGTATCAATGTTAGAAAAAAAATGTTTGGATCTGAGCTTAGCTTTACATTTGGAAAAATACCAGCACGAACCATTTCCCACAACAAATATTTTCTGTTGAATCAAATAAAGAAAAGATTAAGCCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031492-Chrnb3:NM_027454:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(55.1=38.3),PF0293211=Neur_chan_memb=WD(100=43.7),PF0293211=Neur_chan_memb=PU(62.1=18.3)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(35.6=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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: