MmuINT0006465 @ mm10
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121636228-121638459:+
Coord C1 exon
chr6:121636228-121636395
Coord A exon
chr6:121636396-121638275
Coord C2 exon
chr6:121638276-121638459
Length
1880 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
CTGCCTTCCTCCTTCCTCAGAAT
3' ss Score
10.87
Exon sequences
Seq C1 exon
GACCAGATCTCTGGCGGGGAGCAGGGTGCAAGGCAGCCAGGTCTCCAGTCCTCTCTGCAGCATGGGGAAGCGCTGGCTCCCAAGCCTGGCCCTGCTGCCGCTGCCGCCACCGCTGCTGCTGCTGCTGTTGCTGCTGCTGCCCACAAATGCCTCAGCACCACAGAAACC
Seq A exon
GTGAGTCCACCGAACGCCAGAAACTTGAATTTAAGGCTTCTGTTTACTCGTTTCTTTCTTACAAAACCGTGACCTTCTTTCTCATCTCCTAGGTTCCTTAGAGCGCCGAGATTTGTACAAATCCTCCTCACTCATTATTCCTCCTCATCTCAGTTTTAATCATTTCTCTTTAGCTCTCTGGATTTCGGAATATCCAAACTCCCCGGTGACACACAGAACCTTTGTAGGTACTCTTGTCTTCAGGACCTCCTGTGGCTCTGCTGAGACTTTGCCCTTGCTTTTTCCTTTACATTCCTCAGGGCGTTTGATAAAACAAAGATTTTTTTCTTTTCAAAATCTCTAGGAATGATTTCAAAGGTTGATGTTGATGCTGAAAATGTAAACGACTTTTGTTACAGGAAAAAACAAAACAAAACAAAACAAAACAAAACAAAAAAACCCCCAACAACAACAACAACCCCAAAACCAAAAAAACTATTGTGCAAATCAGCTAGCGATGAAATCTGTGCTCCAAAGAAACGAACCAAGGAATGTAGAGAGACAGATAGACAGACAGAGCAGGTCATACAAGAAGATGTACAAGAAACAGTGACAAAGACATAGTTATTGGGAACTTTTTCTTAGGGCTTCTATTTACACATAAGACAAATGTTACTTGTTTAATGGGGAATATCCAGCTAAAGGTGAGAGCACCACGGTGGAAGAAGAGAGCACACAATTCTCAATATAAATGTATGAATCATGAATATATTTTTTAGTAAGTTATGTACTAGGACTTCTGAAAATAATCCAATCATAAGAAAACATTTAACACTTACAAATTTATGGTCACACATATAAAGGAAGAGTTACTGTTAAATTTATATACCCACAGGTAATATTTCATATTTATATTAATATTAACATATATATATAACACATATATGTTAATAAAAATGATAGTTGATCATGAGATATTTTTAAGCATAAGGAAATCATAGTATAAACTTCTGGATAGTAAGTGGCACAGAAATTAGAATTTTTGAGCATTACAAAAAGAACCTACACATTTTATTTATTTATTTATTTATTTATTTATTTATTATTTTATTGTGGTTGTCCATTTGTTTTGTGGTTGTTTGTTTTGAGACAGGATTTATGTTAATTATGTCTGACAGCATCCCCGTCTCGGCCTCCCAAGTCATGAGCCACATCTCTCAATATCTATTGTTAAGTAGGTGATACTACCTATAATATTTAAAATTCTATGGACTAGCTAAAATCCAACGTAAGTGAAATTAAGCCTTATTTTAGGCTATCAAGAGAGTTTACTGTTTAAAATTGTAATAAAAGTAGAAGTTAACTTGAGAGTACAGAAGAGTTGGGTGGCATCTAAAGACATTCTTGAGAGTTGCTGTTTGAAACTGGAGGGTTGGTCTTTAGTCATACATGATTGATAAATGGTCTGCTCTGTTCCTGAGTTTCCAGAGGCTGGATTACATTGAAATGGAGCTTTTCTCTACATTTGGGAAGGCAAACTCATATGATAGAAACATCCAGGTTGGGTAACCCACAAAGACTTAGTCGTCAGCAACCGCAACCGAGACTCTCAACTAGTGACTCTTTTTGTGAGGTTCAGCTTTCTTATTTGTCAAATAGAATCACATTCTTGATGTGGAAGTTTTGCAAGCTTGCTGAATACATGTGCATGTTTTCTTCCCCCACTGCCCCCTCAACAAAGATGATCACTGGTAGGTGGTGTGGTAGGGGATTCTTAGTTCATCCTCTGCCTTCTCCTCCCGAATAACTAAGGAGGATGATGGTGGCACTGTGATGGCACATAGAGATGCTCATAGCAACAACCCCTTCCCGCTCCTCTAACTGCCTTCCTCCTTCCTCAG
Seq C2 exon
AATCTACATGGTGATGGTTCCCTCCCTGCTCCACGCTGGCACCCCTGAGAAGGGCTGCCTCCTGTTCAACCACCTAAACGAGACAGTAACAGTGAAAGTATCCATGGAGTCTGTCCGTGGGAACCAAAGCCTCTTCACTGACCTTGTTGTTGACAAGGACTTATTCCACTGTGCCTCCTTCATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111:ENSMUST00000032203:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGATCTCTGGCGGGGAG
R:
GATGAAGGAGGCACAGTGGAA
Band lengths:
349-2229
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