MmuINT0079596 @ mm10
Intron Retention
Gene
ENSMUSG00000032269 | Htr3a
Description
5-hydroxytryptamine (serotonin) receptor 3A [Source:MGI Symbol;Acc:MGI:96282]
Coordinates
chr9:48901418-48904746:-
Coord C1 exon
chr9:48904577-48904746
Coord A exon
chr9:48901579-48904576
Coord C2 exon
chr9:48901418-48901578
Length
2998 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CCTTTCGTCTTCTCTCTCAGTCC
3' ss Score
10.17
Exon sequences
Seq C1 exon
TGTGGACGTGGGGAAGTCTCCGAACATTCCTTATGTGTACGTGCATCATCGAGGTGAAGTTCAGAACTACAAGCCCTTGCAATTGGTGACCGCCTGTAGCCTTGACATCTACAACTTCCCCTTTGATGTGCAGAACTGCTCTCTGACTTTCACCAGCTGGCTGCACACCA
Seq A exon
GTGAGTACTGGGCTTGTGAGTGGGGCAGAGGTTGGGGCTCACAGGGACTGGGGAGCCAGGATGTATCCTCTCTTCATCAAGCCATCACTATTTCCTCCCTCCTCCCCACCACTGCTCCCTTACCTGTCTCTTTCATTTGTCTGGTTCCTTTGTAGTTCTGGGGCTCTAACCTAAGACCTTGCACATGCTAGGCGAACACTCCACCACTGAGCAATATATCCTGCCACTTCTCTTTTTAATGTCAATGAGCCTCTGCTTCCTCTCCCTCCAGATGGACACAGTATTGCTGTTCTCACTGCCTCTGTTAGCTGTTTCAAAGATTAATGAGGCGGTGTGAATCGGCTCCAAGGCACTCAGCAAGGGACACTTCTTACCTAGCATCTCAAAGAAGATCTGACAGGAAGTGCGTCTCAGACCCACCAATGCCCCCTGCACAGGTGTCCTCATTCCCTTCCTACCCTGGCTCTCCCCATGCACCACCCGCACTGTGGTTCATGCTCTCCACAGCAGCCACTGAGCTCTTATTAAAATGCAAATCTGATCATGTCATTTAAAGCCCTCAATGGCTTCCCAGCAGTCCTGGGACCCAATCCAAAACCTTGACCTGGTCCTGCCCACAGTGTCCCACAGCAGCTACATCTGGTGTGTGCCAGCCCAGCTGCCTTCCTCTGGATGCCTAGAGGTCCTGACTGTTCTTTTTTATCACAGGCTGTTTCCTCTCCTAGGCTACCCACTTCTCCTCTTTCTCCTGCTCCCAGCACCCCAGCCACAGCCTGGTCAACTCCTCCAGTCATCTAATTATGCCGAAAGGCTCATCAGCTCCTGGAAGGACTTTCCATGGCTCCCTAGACTAGCTTTCTTTCATGCAGTGGTTAAAAACCCTGGGTTTTCTTACAAACTTCATCACTTGTCAATACTTGTTTAGCCCATGTCTAATTTGCTCATGGATATAATTTTGGAGGAATGGAAACATGGTTTCTGGCTCTCCAGCACAGTGTCTGATCCTGAGAGATTTTCTTGAGTGTAAACGTGCCAGGTACTCAGTGGAGGGCTAGGAAAGGCATGCTGTCTGACTATAGCAAGGCAATCCTTCCTTCTCTGACCTATTCATTACATTAAATTTCAATTACAGGGGCTGGAGAGGTAGTTCAACAGTTGAGAGCATTTGTTCCTCTTCCAGAGGACCCAGGTTCAGGTCCCATCACACCATATGACAGCTCTCAACTGTCTTTCTGTAACTCTAGTTACATAGGATAAAATGTCTTCTGGCCTTCACAGGAACTGCACATACACAGTACACAAACATACATGCAGGCAAAACACTCATATATACATATATGTAAATGTATACACACACATATACTTTTAAAAAAATACAACATGACATGATAGAGTCTTCCAGTTCCTTCTCTCTGCATTTCCACCCGCATGCACGTGCACACACACACACACACACACACACACACACACACACACACACACACACTACCTATGAAGAGCACATATTGCATACACTATCATACACTGTTACTTGTATGCTTTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCTCTTTTCTTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTTTTTTTACCAACAATGAATCCCTGACTTTTCTTCCAAGTTAGTGTGTGTGAGCTCTTCCTCATAAATTTTAATTGCAATAGACTCAAGTGCATATATCATTGGACACCTGGTATTTTATCCATCAGTGGACAGTTATTCTTTCTTTATTTCCCTTGAAGTGTAAATGTGCGCGCACGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTGTGTGTGTGTGCGCGCGCGTGCACATGGTGCTCATATATGTGGGCATCAGAGATCAGCCCAAGGTGTCTTCCTCAGCTCTTCTCCCTCTTGTCTTTTTTTAGGGAGGCTCTCTCACTTTTTCCTGTACTTGCCATTGAGGCTAGGCTGGCTGGCCAGTGAGCCCAAGGGATTTGGTTGTCTTCACCTCTCCAGAGCTGAGCTGACAGTGTGCTCTGTCACACCCTGTTTTCTTATGTGGCTTTTGGGGACCAAACTGAGGTCCTCATGCTTGAGCAATCAACAGGTTCCAGGTCCACTGGAAGAGCAACAAATGCTCTTAACTGTTGAACTATTTCTCTACTGGCCACCCCAACACTTTACTTTTTGGCTTTGAACTCAATATATGAGTTCAGACTGGCCTCCTAGACTGTCCTGGGAATCCTCCTGGCTCTGTCTCCTGGGTACTGAGATTATAGGCATCTGCAAATAAGCCTGGCAGGATATTTAGATCTTTTCCAATGTTTTGGTTCAGTGGATATTGTTGTGTTTCCTGGTAGACAGACAGACAGACAGACAGATAGATAGAAAGGTAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGGTAGATGATAGGTAGATAGAGGAGGATTTCTTTTATTTTCTTAATTCTTCAAAGACAAGTAGTTAATTCTATGAAGGCAGAGGTAAAAGATCATCGTGTTTTGTTCATTTTCTAGATGCAAAACTAACAAAGAAACATAGAAGGCTGTTTGGAAGGTATGTGTAAGCAAGTGAGAGACAGAGAGAGAGAGCTTTCTAGTGGATGCTTCCTTGGTTCTTTGCACTGTGTTCTCACTACAGGCTTGTGAGATAGACACCATGTGTTCTATCACTCCTCTGTGTGGCTGAGGAAACCCAATCTGAGAGTTAAGGGCAGAGATCTGTAGTCTAGAGATCTGACAACAGGGCCCCTCAGGTATTGTTCATCCTACACTCCACCTTCTATGCTCGAAGGTTCTATGATTGAGATTCCAAAGCTTTTCTGGCCTTTCGTCTTCTCTCTCAG
Seq C2 exon
TCCAGGACATCAACATTACCCTGTGGCGATCACCGGAAGAAGTGAGGTCTGACAAGAGCATCTTCATAAATCAGGGCGAGTGGGAGCTGCTGGAGGTGTTCCCCCAGTTCAAGGAGTTCAGCATAGATATCAGTAACAGCTATGCAGAAATGAAGTTCTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032269:ENSMUST00000217289:5
Average complexity
IR
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:
PF0293118=Neur_chan_LBD=FE(27.3=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(25.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
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
- 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