MmuINT0057664 @ mm10
Intron Retention
Gene
ENSMUSG00000048120 | Entpd1
Description
ectonucleoside triphosphate diphosphohydrolase 1 [Source:MGI Symbol;Acc:MGI:102805]
Coordinates
chr19:40723087-40725084:+
Coord C1 exon
chr19:40723087-40723237
Coord A exon
chr19:40723238-40724924
Coord C2 exon
chr19:40724925-40725084
Length
1687 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGAG
5' ss Score
3.22
3' ss Seq
TCACCTCTTCTTTTGTGTAGAAT
3' ss Score
8.16
Exon sequences
Seq C1 exon
GTCCTGGAATCTCAAAATATGCTCAGAAAACAGATGAAATCGGTGCGTACCTGGCCGAATGCATGGAACTGTCCACCGAACTGATACCAACATCCAAGCATCACCAGACTCCTGTCTACCTGGGAGCCACAGCAGGCATGCGCTTGCTTAG
Seq A exon
GTAGAGTGATATGCTGGGACCAGCATGCTAGGAGCTGGAGGCGGTGCTGAGATGCCTGACATTATGGGACTTGTAGCTACCTCACACGCCAAGTCCTGTTCTGGGAAATAAGTTTTATTAAGTTTTTATAATGCAAGTTTCAAGTATCTAAAAGAGCCTGCCTGTCTCCCTTGGGGAAATCAAAGGGGGCAGAGTATTAGAGAGAAAGATTTTGGGAGTTCACACACTCCAAAATTTGGGGCTGAAGATAGAATCAACTAATATATGGGAAGAAGAAGGTGAAAGAAGACCCACCAATGTCCCAAGACAACCTCAGCTAACAAAGCTCGGCTGATCCCCCACCCCCATCCCCATTAATATCTGTGTGCATTGTGTACATTGGATCTAGGGTGATCTGTTGATTAGCAGAGGAGTGTGCACAGCTGCCGAGGGAGCGCGTGGGATTGCTCAGGATGGAAGGTGGGCGGGATGGCCTGCCACATCATGGCTGCATGAGCAGAGGAGGGGCGGGAGTCGGGGGAAGGGTGGCACTGGCAGAAGTACAGCGTCATTCAGTTAGACATCATTTAACACTGTTATGTGCCACGGATGGTCTTAGGTGCTGGGGCTAAAGTATCAAACAGAACAGAGCTCCCAGCATTGCGGAGTTTGTGTTCTAGTGGATGTGCAAAGGTGGGGAAATGAGAAGCCAGGGCAGAGTCAGGATTGTGAAATAGAAAGGAGATGGGGGTGCAGGGTGCGGCGGGGGGCGGGGGGAGTAAAATAATAGAAGCTCGTGTCTCAGCGAGGTGCTAACTACTTAAGAAACACACTGCTTAGTCATGAGGGTCACCATGAAGTGAAGATATAAATTAACCAGAGAGAGAAGCTGCAGTTTAGAAATGTTAAGAAGCCGCGAGGCTGGGAAGTGGCAGAGCTAGGGCCACAGATGGCAGGGTCTAGACCAGGAAATGCCTCGTGGATCCTGTCAGGAAGGTTGGAGAAATGAGAAGTCGTGTAAGGATGCAACGCGGTTATCGATTCTGGAGGGTGGACTGGAACAGGAAGGCTAGGGAACTGTTTGTATGAGAGACCCCAGCTGCCACTTCATTTCACTCAGAGCCTCTCCAGGTTTCAGACTGGGTCTTAGAATAGTCACATCCCATCTTAATATAATAACCCTGAGACTCCCTTCATGTCTTGACGTTTCAAAGAGACCCAAGACCTGAGTGATCATATGAGAAAGATTTTTTTCCCAGGCTGACTTCAGAGGAACATGTGGTACTCATTTCTACAGTGCTAAATGACCTTCCTCAGAGTCTAAGGTGGAAAGAAGCAGGGGCCACAGTGATGGCTAAAATCTCACACCCCAGCTCTCAGTATGGCCAGATACCGCCAAGCTACCTCCACCAGGGAACAAAAGCCAAACTGGTACTTTAAAAAGATACTTCTACTTAATAAATGGAGGACTTGCACTTGGAAAGACGGAACCTATACAGAAGGTCCTCTTGTCTTCCAGTCTGGTGTGTCAGGTCAGGTTCTCTGACTGAAATGGGTAGATGTAACTATGAAGACAGGGCAAACAAACAAACAAACAAAAAGAGCACAAAAGCCAAAGCAAAAAAAAAAAACAAAAAAAAAACAAAAAACCAAACCCAACAGGCAAACAAAAACCTCAAAAGATAACATCACCTCTTCTTTTGTGTAG
Seq C2 exon
AATGGAAAGCGAACAATCGGCAGACGAGGTCCTGGCTGCAGTGTCAACAAGCCTTAAGAGCTACCCCTTTGACTTCCAGGGTGCCAAGATCATCACTGGACAAGAGGAAGGTGCCTATGGGTGGATTACTATTAACTATCTGCTGGGCAGATTCACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048120:ENSMUST00000112231:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0115012=GDA1_CD39=PU(46.0=96.7)
A:
NA
C2:
PF0115012=GDA1_CD39=PD(52.4=94.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTGGAATCTCAAAATATGCTCA
R:
CTGAGTGAATCTGCCCAGCA
Band lengths:
311-1998
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