MmuINT1024618 @ mm10
Intron Retention
Gene
ENSMUSG00000035513 | Ntng2
Description
netrin G2 [Source:MGI Symbol;Acc:MGI:2159341]
Coordinates
chr2:29196982-29198915:-
Coord C1 exon
chr2:29198814-29198915
Coord A exon
chr2:29197150-29198813
Coord C2 exon
chr2:29196982-29197149
Length
1664 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CTCCCACTTGGCTGGTCCAGACT
3' ss Score
3.94
Exon sequences
Seq C1 exon
CTGTAGCTATCTCTGTCGCTGTCCCTTCCCAAGCCAAGGACTCTACGCTTTTCGAGCTCAAGCCCAGATCTCCTCAGGTGATACCCATTGAAGAATTTCAAG
Seq A exon
GTAAGAAGGTGGCCTGAGTCAGGCTTCCCACCTCCTCTCCAGTTTGCCGGAGAAAGACGGTGCAGGACAGAACTAGCTTGTTGGTATCAACTCAGAAAACCCTCCCAGAATAGCTGGGTCAAGGTTAAGCTGAGTCTCTCCAGCCCCAAGGGAGCTAAAAGCTGGGATGAGTCAGAAGCCAACTCAGGCACAGTGGGCAGGCACATGGCAGGAGAAGCAGCTGCCACAAATAGCCTGTCCTGGCTCCCCTGGGAGGTGTGGCCCAGGGGCTTGTCTTGGTTGGAATGGAATCTGGGACACCTGGGTCACTCTTTGGGGGCGTTTGGAGGATGTTTCCCGGTGTCTCAGGAGGACCAAGGTAAAGTCGGGTCAGGTAGACCCATGGGTGTTTCTCCAGACTCTCGTGTGCCTTTGACCATACGGAGACCAGGTCAGCACCACCCTGATCATCACAAGAGAGGGAGCTGAGGTCCTCTAGGGATAGCTGCTCAGAAGGTGGCCAGCATTCATGTGTAATGGCATGGGGGTATTGAGTCCCTTAGAAGGGACACAATGATGGTCTATCCCGCTGAAGGAAAAGTGGCCCTTCAGATTGACCTCTGCTATTCCAGGTCCTTGACCTAGGCAGTCATGGGAGTTGATAGAGTCATTTGGAAGGTCAGCCTGAGAACCTGTGTTGAATATGTAGCTTGGTTGGTAAAGTGCGCTCGCACAGGAAGAAACTGCTCTGGAGTCTCAGCACAGCATCAACTGGGTGTGGACCTGCATGACTGTAATTCCAGGTCAGAAGACCAGAAGTTCAAGGTCATTCTTAGCTAATTATTGAGTCCAAGATCAGCCTGAACTACCCAAGACCTGGTCTTTTTATTACTACTATTAATCATTCCATTCATTTACATCTCAAATGATATCCCACTTCCCCGTTACTCCTCCACCAATCCCGAGACCCTGTCTTAAAACAAAACCAAAAACATTTGTGGGAGGGAGAGTAAAAAGTCCCACAATGGCTCAGAGGTGGCTTTCCTTGGTTTAAACTGAACAGTGAGATTCAAAAGCTGGGCTGAGACCAGAGGAAACCAGGAGATAGGTGCCCAGTGTCTTGCTGAAACTAGCAATTCAGTGCCAATCAAACTTGTGGGAGGTCCAAGCTAGTAAGAAGATTGGGTCCTGTAGGAATTTGCAGAGACAGTAGCCAGTTTCCCTCTTCCAAAGCAGCATGGGAAGAAGGTTCTGTCCCATGCCATCATATCCAGATCCCTGTATGACTCCATTCATCCATAGGCCCTCAAGGGAACTCTAGCCAGCCTGGAACCTTTGCATTCCCTCTGTAAATGCAGCCTGCAGCATGACCCTGCCCTCCTAGTCAGCCTCAGCATGCAGGCATCCTTCAGACAGCTCCTTGCCCTGAGACCTAGTCAGATGTTAGCATGCCCTTGCCTCACTGACTGTCTGCCCACAGGCCTCCTGGGGACTCAAAGCTGACAGGGCAAGCCTTAGCCACATGCTACAGAAGTGTCCTGGACCTGAGACCCCGTCCAGATCCCCCTCCCAAAGATGCTTCCTGCCACCTTCCCTGTATATTCCTGGGTATGCCTTTCTCTGTATCCCTGTTTTCCCCCAAATGCTCACTGACCACTGGCATTTCTCCCACTTGGCTGGTCCAG
Seq C2 exon
ACTGCGAGTGCTACGGCCACTCCAACCGTTGCAGCTACATTGACTTCCTGAACGTGGTGACCTGCGTCAGCTGTAAACACAACACTCGAGGCCAACACTGTCAGCACTGCCGCCTGGGCTACTATCGCAATGGCTCCGCAGAGCTGGATGATGAGAACGTCTGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035513:ENSMUST00000048455:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.121 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=94.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTAGCTATCTCTGTCGCTGT
R:
CAATGCAGACGTTCTCATCATCC
Band lengths:
270-1934
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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