MmuINT0151672 @ mm10
Intron Retention
Gene
ENSMUSG00000026532 | Spta1
Description
spectrin alpha, erythrocytic 1 [Source:MGI Symbol;Acc:MGI:98385]
Coordinates
chr1:174219766-174222699:+
Coord C1 exon
chr1:174219766-174219974
Coord A exon
chr1:174219975-174222578
Coord C2 exon
chr1:174222579-174222699
Length
2604 bp
Sequences
Splice sites
5' ss Seq
AGAGTACGT
5' ss Score
6.58
3' ss Seq
ACTTTCTTCCTTGGTCCCAGGGA
3' ss Score
8.8
Exon sequences
Seq C1 exon
GACCCTCTCAAAGATCTGAATGACCTGGCTCAGGAGCTGATCTCCAGTGGGACTTTCAACATTGACCAGATAGAAGAGAAAATGAATGGTGTCAATGAGCGCTTTGAAAATGTCCAGAGCTTGGCAGCTGCACACCACGAGAAGCTGAAAGAGACGTATGCCTTGTTCCAGTTCTTCCAAGACCTGGATGATGAGGAAGCCTGGATAGA
Seq A exon
GTACGTATCACCAGCTCACTGGGTAATGCACCAAACAGATTCAGTGCATGCTGAAGTCAATTTGTAATTGATTTTTATGTTGATAATACTTTTAAACCACTGCCTCTGCTGAACATATACATTGATTTCACTTTTCACCTTAAATGGATACAGGCAGGAAACCAAGTGCAGCGGCAGATAGGAAGGAACAGTTTCAACCACATTCTGGGAATAAAATTGAAATACCATACATTTTTTTTTTAAAGAAAAGAACAGTTTGTTGAATTATATAGCACATGGAAAGCCAATTCTTTGCAACTAATGCAGAAGACCACAACATGGTCATTATTATTTTCTTTTTAATGATGTATTTTTTATTTATGTGCATATGAATATGTCAGTGTATATGTGTCCTTACATGTGAGTGCTTATGGAGGCCAGCAGAAAACATAGAGTCTCCAAGAGCTACAGTTGCAGGTTGCTATTGAGCCTCCTGATATGAGTGTTAGGAATCAAACTGCAATCTTCTGCAAGAGAAGCAAGCATTCGTAATAACAAATCCTCCTCTCCAGCCCCCAGTCATTACTCTTTCTATACTTGTTGCATAATATGTGACTGTAGGCAGTCCCACCATCTGTCATAGTTTCAGTGCTGACCCCATCCCTTTAAATATGGCTGGGAAATTCTTAGCAAAGCAGGAGTTTTTGCCTGTTTCATAGTTACTTTGTTCCTTTTGTTTCTCAAATGCCGGTCTTCAGATTCTTTTTTTTTCCCCCCCAGTGGATATTAGCCCAGAAATTTCTTTTTTTTTCTTTTTTTTTTCCTTTTTTTTTCCATTTTTTATTAGGTATTTAGCTCATTTACATTTCCAATGCTATACCAAAAGTCCCCCATACCCACCCACCCCCAATCCCCTACCCACCCACTCCCCCTTTTTGGCCCTGGTGTTCCCCTGTACTGGGGCATGTAAAGTTTGCAAGTCCAATGGGCCTCTCTTTCCAGTGATGGCCGACTAGGCCATCTTTTGATACATATGCAGCTAGAGTCAAGAGCTCCGGGGTACTGGTTAGTTCATAATGTTGTTCCACCTATAGGGTTGCAGATCCCTTTCGCTCCTTGGGTACTTTCTCTAGCTCCTCCATTGGGAGCCCTGTGATCCATCCATTAGCTGACTGTGAGCATCCACTTCTGTGTTTGCTAGGCCCCGGCATAGTCTCACAAGAGACAGCTACATCTGGGTCCTTTCGATAAAATCTTGCTAGTGTATGCATTGGTGTCAGCGTTTGGATCATAGCAGCCTTATTTATAATAGCCAGAAGCTGGAAAGAACCCAGATGCCCCTCAACAGAGGAATGGATGCAGAAAATGTGGTACATCTACACAATGGAGTACTACTCAGCTATTAAAAAGAATGAATTTATGAAATTCCTAGCCAAATGGATGGACCTGGAGGGCATCATCCTGAGTGAGGTAACACATTCACAAAGGAACTCACACAATATGTACTCACTGATAAGTGGATATTAGCCCAAAACCTAGGATACCCAAGATATAAGATACAATTTCCTAAACACATGAAACTCAAGAAAAATGAAGACTGAAGTGTGGACACTATGCCCCTCCTTAGAAGTGGGAACAAAACACCCTTGGAAGGAGTTACAGAGACAAAGTTTGGAGCTGAGATGAAAGGATGGTCCATGTAGAGACTTCCATATCCACGGTCTTCAGATTCTTACAGGTAGCACATAAGTTAGAAGGAAGCATGTTTTATAAGGTGTCAAATAGGACCTTTGAGTAGTCATAAAATACCATAACCTTTCGGTGTTCAAAAACTTCATGTAGTTTGTAATGCTAAAGATCAAGTGCAAGGCTTTGTATAAGCTAGAGCAGTTTTCTACCACGAGACTATATCCCCAGACATGATATTTATATTAATACACAAAATAATGAAACTCATATAATTTTCATAGTGTTCAAAAGAGAAAACACTAATACATATTCTAGAGTACTAATGGGAAGACTGTTACTGCTATATACATGCTGGACATTGGTATGTTATTTTCATTTTGGTGACATAAATCAAGTTTTCTAAAATTCTCTTCCACTACTTACCTTTTGGTTGTTGATTCCTGGATCAGTAAAGGGTTTGTTACTGTTATTAAAAAAAAAAAAAAAAACACCCTGACCTAAGCAACTTGAGAAGCAAAGGATTTCTTTCAGCATACAGTTCAACGGCCGTCTTTTACTGAGAGAAGACAGGGCAGGAAGTGAAACAGATCAGAAACCTGACTATAGGGGCTGATGGCATAGACCATGTATGAGTGCAGTTTACTGGCTTGTTCCTCATGGCCCATAGTGAACTCAGTTCTCCTACAACAATCAGCAATTAAGAAAATGCACCACAGTCTTGGCCACAGGCCATTATTCTGAAGACATTTTCTCAATTGAATTTCCCTCTTCCCAATAACTCTAGTTTGTATCAAGTTGACATAAAACCAGCCAGCACAGTCCCAGTGTTCATCAGAACTTCAGCTCTCACCATGCATTCACATAGACATCTATTGTTCTAGTTTCATCTCAGATATATCTAACCTCTGATTTTCCCACTTTCTTCCTTGGTCCCAG
Seq C2 exon
GGAGAAGTTGTTACGAGTGAGCTCCCAGGACTATGGGAGGGATCTTCAGAGTGTTCAGAACTTATTGAAAAAACACAAACGCCTAGAGGGGGAGCTAGTGGCACATGAACCTGCTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026532:ENSMUST00000027817:36
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=0.111
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(47.6=71.4),PF0043516=Spectrin=PU(16.2=24.3)
A:
NA
C2:
PF0043516=Spectrin=FE(38.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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
- 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