MmuINT0110052 @ mm10
Intron Retention
Gene
ENSMUSG00000015094 | Npdc1
Description
neural proliferation, differentiation and control 1 [Source:MGI Symbol;Acc:MGI:1099802]
Coordinates
chr2:25403071-25406361:+
Coord C1 exon
chr2:25403071-25403365
Coord A exon
chr2:25403366-25406214
Coord C2 exon
chr2:25406215-25406361
Length
2849 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
TGCCTCTGCTTCTTACTCAGATG
3' ss Score
8.14
Exon sequences
Seq C1 exon
CTCTGGCCGCCGCGCCTCCATCCCATCCCGGATCCATTGCCGCAACGTCAGCGCCACCGCCTCCTCTTTTCCTCTTCCTCCTCCGCCCCTCTCGCTTCCCGGCTTCTCCAGTCGCAGTTCCCGGAGTGGGTACCGAGCCCGGGGCCGTGGGGTGCCATGCTGCCCGGGTAGCGGCGCTGAAGCATGGCGACGCCCGTCCCTCCGCCTTCCCCGCGGCACCTGCGGCTGCTACGGCTGCTGCTCTCCGGCCTCATCCTGGGAGCGGCCCTGAATGGTGCCACCGCCCGCCGCCCGG
Seq A exon
GTGAGCGAGCGCTCTGGGCGCAGGCTGTTGGGTGCTCCGGGGCTGGGATTGCGGGGCGGAGAATCCTGCCCCCGGCGCCGCCCTGGTTTTCCCTGCCACCGCCCCGGCCTTACCCAGGCCCACAGGCCAGGCAGGCCCGGTCCGCTGGGCATGGATTGGGTAAACAGGTCAGGCCCGTTGAAGGCCATGCTAGATGAATCTTCTCTCAGGTCCTTGGAGGCGAATGTAGATTTCACGCGCTTTGGGTCTTTGTCTCTGGGTCCCTGAATCAGTCTGGTGTGTGTCTTTGGGTCTGCAGCCATCTGGTTTCTGGTGGCCCATAAGTGGGATCCTGTGTCTTTGTTTGTGTGTCTCTGGGGCTTCCCGTTGGCAGGGTTGTTCTTGGGGTCTGTGGGCCTTGCATGTCAGCCCTGTCGTTCGTTCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGAGGGGTTCCCATGGAAGGTCTTAAGGGTTCCAGGTCTAGGGTCTTGTTCCAACTTAGTGGGGTCAAGCTGCCCCATCCCCTGCCCTGAAGGACATGCACCACTGTCCTCTGGTCTGAGGTCTGTGTAGTGACTGTTTAGAAGAGTGTGACTCCCTGACTGGGAGAACATTTTCTCTTTTTTTTCGAGATGGTTTCTCTGTATAGCCTGGCTGTCCTGATCTCACTCTGTAGACCAGGCTGGCCTCAATGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCATTCACCACTACTGCCTGGCTCTGGGAGAACATTCTTGACAGATGGGTCCTGAAGCCACAGGATCCAAATTGTATCTCCCCGAGGGGAGTGAAGTGGGAGAGGTTGCCCATATGTTCACTGAGTTCTTCTGGAACTATGTGTGGGAGCTGCTTTGAGCCCAGCTTACAGATGAGGAAGCTGAGGGCATGGAGAGGTGACTGGTACGTGGACTCTAACAAGATCGGTCTGGATATGGGACCTTAAGAGCTGGGCAAGCAACCCAGGAACTGGACTGAAGGTTGGCATGACTGGAAGAGACTCTTGAGGAGGGTGGAGTTCCAGACTGGGCCTTACCAGAGATGCCAAATAGCCTGCCTCCCTGGTGGACACCCTTCATGGATGGGACTAAGGCACAGTACTGAAGCCCTGGGCATGTGCTGGCCTCTGCCCACTGGCCTCTATAGCTGAATGCAGAGACTTGACATGGCCCATACTAAGCGTCCCCTTATCACACCTAGTGCCCAGGAAGGGCCGGTAGCCTAGCATGGTTAGAAAAGCAGATACTCTGCAGCTGCCATTGGTTCTGAGACCCAGGCTGGAGAGGGACTTTCTATCCAAGATAAAACAGTAGGTTGGTGGGCTAAGGAGGCCCTACAGCTCAAAGCCAGCATTGTGCTACACCTCTAGTATAGGTCTGACTAGCTTGTTAGCACCAGGGGCAGGGACTGTCTGCCTCCCTGGAGCCCAGCTGGTGGGTGGAGCCCGTGTAAGCCTCCTAGCACAGTGCTGTTTAACTCTCTCAAGTCCCAAGCTCAGGTTGCTGTTCCTGGAGGCTGCTGACAGTCTATGGTGGACAGAAGGTGCCTAGCCTGGGATTCAGTGTGCCACCAGAGCTTCTGGAACTTCTTAGCAGGAGACATAGAGTGTCAGATTACAAAGGAAAGTAGTGCAGTAGTGGCGCACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTTCCGGGACAGCCAGGACTACACAGAGAAACCCTGTCTCGAAAAACCAAAAACCATATATAAAAAAAAAAAAAAAATGAAAACCCCCCAAAACCAAAAACAAAGGAAACTAAGGCAAAGTCTATAGGAGGCTATGGTTAACACATCCCATGGGGCCCACAGCATTGCCTGCAGTGTGCAGTGGAAGGAACTGGCTGGCCAGAGACACAGGAAGTTGATGGTCCTGCTGGGTATTTCCTTGGCCCTGCTGGCTTCCCAAGACAGAGACCAAAGTTCCAGGCTGGGATTATTCCTTACCTTTGAAGCAACTGAAGGTGTATATCCCATAGGAGAAACTGAGGCATAAAGCTCACTGCTCTGTGTAGCTGCATCACGATAGGACTGTTTGGCAGGTATAAGAGAACATTGTGCTCTGGGCCCCAAAAATGTGACTCAGAACTATGACCTAGACTGGCATCCCCAATACCGATCAGCCCAGGCCTTTCAGTGCCCTCATTGTATCTAAGCCAGTGGCATCTTAGGTCTCCCAGTGCCATGAAGACAAAGGCTAGGCAGAGACAGCCACTGTCTTCTGGACTGAGCATTTGTTCTGTGGACTACCAGACTAACTCTAGGGTTATAGGACTATGTGCTGGGGGTCTAGAGAGGAACACCAATGTTTAGGAGAATGTCTACGCAGCATCCTTTGCTTCTCCAGAACCAAAGAGAGAACAGAGCTCAGTTGGCGATCTGAATGAAAGGTCCTGGCTCGCTCTGGGCCACCAAAGGTCAAAACTGAGCCTTGGAGAGCTGACTGGACAGTAAGGGTCGGTTTATCCTTTAAGCATAAGGCTTAGGCCTGGGAGCAAGACCGTGGGGAGTGGGTGGGGCAGGATAGTTCCCATAAGATTTGGGACTGATGCTTCCTGACTCTGAGACGTGGCAATAGGAAACCAGGGCCTGCCCAGGGCAATGATTAGAGCTCAACCTGGCCAGCTCTGTGGAGGAAGGGTTCTAAGCAGAGCTGCTGCTGTAGGAGGTGGGAGGTCGGCCAAATGGGCTATGATGGGCCCTGCCTCTGCTTCTTACTCAG
Seq C2 exon
ATGCTACCACCTGTCCTGGAAGCCTGGATTGTGCACTGAAGAGGCGGGCAAAATGCCCACCAGGGGCACATGCCTGTGGACCATGCCTTCAGTCCTTCCAGGAAGACCAGCGAGGGTTCTGTGTGCCAAGGAAACACCTATCTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015094:ENSMUST00000071442:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.294 A=NA C2=0.097
Domain overlap (PFAM):
C1:
PF068096=NPDC1=PU(11.1=97.4)
A:
NA
C2:
PF068096=NPDC1=FE(14.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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