MmuINT0108512 @ mm10
Intron Retention
Gene
ENSMUSG00000021806 | Nid2
Description
nidogen 2 [Source:MGI Symbol;Acc:MGI:1298229]
Coordinates
chr14:19803049-19805427:+
Coord C1 exon
chr14:19803049-19803218
Coord A exon
chr14:19803219-19805297
Coord C2 exon
chr14:19805298-19805427
Length
2079 bp
Sequences
Splice sites
5' ss Seq
CATGTAAAC
5' ss Score
-0.59
3' ss Seq
GTCACCATTGGTCCTCAAAGGGC
3' ss Score
3.52
Exon sequences
Seq C1 exon
GCATACCCACCGTCGCTCCACCCGTGGTCCGGCCCACACCCCGGCCCGATGTGACTCCTCCATCTGTGGGCACCTTCCTGCTCTATGCCCAGGGCCAACAGATTGGCCACTTGCCCCTCAATGGCAGCAGGCTTCAGAAGGACGCAGCCCGGACCCTGCTGTCACTGCAT
Seq A exon
GTAAACTGAGTTTCTCCAGGAGGGCTGGGCTCCACGAGGAGGGTGGGGTCTGAGATGAGGAGGGTGGGGTCTGGGATGAGGAGGGTGGGGTCTGGGATGAGGAGGGTGGGGTCTGGGATGAGGTTGCGCCTTCAGGCTTGTGGGCCTGGAGGAACTGAGCTTTGTGGTTTTCAGAGGGAAATGCAGTGCTGTGCAGTGCAGGGACTCCTGGCATGCATGCCTCTGGGCTTCATCTGCTTTAGTGGGGCTCAGTTGCTGGAAATCATGTCTAACCCACTCTAGCCACTATATCCTGAGGGCATCATGAAAGTCCAAATAGCGGAAGAATTTCGGAGCTGTTGGCTGTTCATGGGAAGATCATTGTTACCTCAGGTTCCTGGGGGTTCTGTTCTGGTCACAGACATTTGGAAGTGAAAACAAAACAAAACAAACAAACAAAAAACCACAGAGGAGGTGGTCATTTGAGACATCAGGGTAGAAATCAGGACCACTTGTCAGGCTGTCCCCTTTCATTTTCCTTTTGTCTCTTTGACTCACTCCTTTCCTGGCGCCCTGCCTGGTCCACTGTACGGCTTTGGGGAAAGTGTGCTGCCTATTCAGCCCCGCCCCGCCCTGTCCCGCAGCCCCGCCCCTGGGGATGCTTATCTCTTGAGCTTGCAAGGCACTTCCATGTGGAGGGAGGGATTTCTTCTCTGAAGTGGGGACCAGAGAGACGGATAGCTACCATGGAAGCTGGTCCGATCCTGTCTTCAGTGTACACCGAGCAGACATTTCGTACAGGGCAGAGTTCTCTCTGTTCACTTCTGTTCTTGAACTGCTGTTCCTAAGAAAGCGTCAAAGCAGCCAGCGTGTGATGAAAAGAGGGCCTTTTTCTTCGAGATTCGAGGCTCCGGCCCCGATCCCAGTTTTTAAGAGTGTAGGGCTTTATAAGTTTCTCCATGCTAACCGTCTTGTGTTCTAGCCACACCAGATGGCTTGATTGCCTTTCCGAACATGTCTAAATGGGCAGGGAGGAGATGGTTATGGTAGAACTGAAGGAGAAGAGGGAATTACAAGCACTCTTGAGGGCAATTTCCCTAAAGTGTGACCTTCATACCAAGAAGCTTGGTTTATGAATCCCGTGAGTCCCTGGGCTCATTGCCACCTACATGAATGTGTGCCCTTGCTTCAGAAGGAGGGAGGACCTTTTAAGTTTAATTTTCAAATAAAAGTGCCATTGACCTTAGGTCCCCCCATATAAATGCTAGCTTTTCTACGGGAGCCAGATTCTTCATACAGTGTCTCATGGTGATTACTTTAGGCCAAGCCCTAGGAGGTTTTCCTAGGCAAGGCGGGGACTGGTGTGGCCTGTGTTGAACTCCGTGTCTGCTGGGGGTTTCACAGCAAGAAACTGGGTTAGAAATGGAAAGAAGCAAGGCCTGTGTGGAGCTCAAGCGGGAACATCGAAGATTCAGGGTTTTGAATAAGACGGTCATTCATCACGAAGGAAAGGGAGAAACTACCAGCCAAAGGCTGGCGACCACAGTCCTCCCAAATTGTTAAATCACAGGCTCTCTTGTATACTGCACAACTAATTGCTTATATTAAGAGGCAGGGGTGGCTACACCTTGGGCTGGGGAGGATTTCATTCTGTTCACCCAGTAGGGAAATCTTGTTGGCATGTGTTAGCAGATTTTAGAAAGGGTCTTTAAGAAAGTGCCAGGAACACTTAGAAGCGTTCATCTTTTGCACCATTAAATATTAAGGGCTTACCTAGCGGGATGCTCCTCTCATCAGGGAAAGGGCTGGTTTTTCTCATGAAGTGACCGTGTTCACAGCCAGTGCTAACAGTACTGGAGGAGCTTGCTGTCTGGAGGTAGTCAGTGGGGCCCTTTATAAATGCCTTACTGACTGCCGTTTTGGAGAAAATGAAAGCATGCAGGTTAAACGGCTGAGCCTGGCTCTGATCCGAGGGAGGAGGCTCCCCCAGCACCGCACCACCACAGCGCAGGTTGTTCACAGTAGTGCTGTGTAGCCGTGAACTTAAGGTTGGGGATTCAGGAATCCTAATCCTTCTGATGTCACCATTGGTCCTCAAAG
Seq C2 exon
GGCTCCATAGTTGTGGGGATTGACTATGACTGCCGGGAGAGGATGGTCTACTGGACAGACGTTGCTGGTCGGACCATCAGCCGTGCCAGCTTGGAGGCAGGAGCCGAACCCGAGACCATCATTACCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021806:ENSMUST00000022340:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.421 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF0008613=Thyroglobulin_1=PD(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=PU(71.4=68.2)
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