MmuINT0108519 @ mm9
Intron Retention
Gene
ENSMUSG00000021806 | Nid2
Description
nidogen 2 [Source:MGI Symbol;Acc:MGI:1298229]
Coordinates
chr14:20582888-20588159:+
Coord C1 exon
chr14:20582888-20583120
Coord A exon
chr14:20583121-20587431
Coord C2 exon
chr14:20587432-20588159
Length
4311 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
CTCTTCTCCTTTGTTCTTAGGCT
3' ss Score
10.51
Exon sequences
Seq C1 exon
CTGAACACTTTCCAGGCTGTTCTGGCATCCGATGAATCTGATACCTACGCCCTCTTTCTCTACCCTGCCAATGGCCTTCAGTTCTTTGGAACCCGCCCCAAAGAGTCCTACAATGTCCAGCTGCAGCTTCCCGCTAGGGTGGGCTTCTGCCGAGGGGAAGCGGACGACCTGAAGAGAGAAGCACTGTATTTCAGCCTGACTAACACCGAGCAGTCTGTGAAGAATCTCTACCA
Seq A exon
GTAAGTAATGTGCCTGTGGATGTGCCTGTGTTACCCACTGGAATGACATTTAGGAGGGACATGATCTCAAGTGACCAGAGACCATTCGATAAGAAGCTTTGGTGGCTTCTAAGAAAGGCACTGGCTCAAAACCAGGAGCTAAGCTGGACCCCAGAGCTTCAGGCTCTCCAAGATATAAAAGATCCTTTATTTTTTCCTGCACTGTCAGTTCAGGCATGGAAAACAGAACCAGCAGCGATTATATGTGTTTTTGCAGAACCACTGGGCTTGCTAGGAAAAACATTGTTCTTGGAGCTACATAAAAATATCCAGTAATAACTGCCTCAGTGGAGGCTTTTCAGGTTAATGATTTCTTCAGAGGAGGCATCATGATTTAGTCTTTCAAACAGGCATTGTTGAGGATTAAATTACAGGTAATATAATAGAGGGAGGGGAATAGATGAGGCTTTTAGAAGTCTCAAGATTTCTCCAGACACCATCACCCGAAATAATGCTGATCGGTTTGCCCACAGCGTTGCCAGAGACGAATCCATTTCTTAGTCTCCCCAGTGGCTTATTCTGCTAGTGCGGCAATAGGCTATTCCGCCTCTTGGTTATAGGAAACCCTTACCCGTTTGCATGCATTTGTGCTTATCAACTAGATTGTGGGCAGAGAGAGTGACTCAGCAAAAATTTATTGATCACTTTCTAACTGCAAACATTGTGATAAAATGTTTGCAAATATTATCTTAGTTAAAACTCACTCAGACTTATAGGTGCTAAGCATAGCTATCTTCCCGGTTTTACAAATAGCCTTACAGAAATTAACAAAGTTGCTTATGTCAGTTTTAAATGGCTAAGCCATAGTCAACACAGGTCCGAATCACAGACACAGGGCTGATATCATATGCAGAGTAGATAGTGTGACTCTCACTTGAATTTCATGTTTCTGTGTTGTTTGTATTTTTTTCATTTTATCAGTCACTCTGGTCACATCTCACTCTGCTCCTCTCTGGCAAATCTGAAATTTCTAGAAAGCATCGAAGGAGGAAATGAAGGAAATCCACGGAGTGGGTGCATGGCAGTGTGTGTGTCTGTGTGCACGGGCGTGCATGTGAGGCCTTTATGACTCTAGTAGAGAAACACAACTGCTTCTCCTCACAAACTTTTTGCACAGATACACGGGCATATGTGTACATATGCATGCACACACGCACACACACCAGCTTCCTATGGCCATGCAGATGCCAATTCTCATTCTAATTTTCTGTGATTCTTGGTCCTTCTTTCCAGGTGCTGTTGGTGTCCAGGGCCTGTGCCTTAAAAAAATGTAGAATTTAAAGCACTCAGCCCTCCTTCCAAGGGCTCTATGCACAGCATTCTTTCCTGTTCCGTGATCCATGTTGGGTGTCTGTTGGTCTCCTTCTTAACCGCTATGTAGTCCAGACGCTAGAACAAACTTAAGCATTTGCCTTCTATCCTTTCTCCTCTCCTCTCCTACCCAGGAGCTTAAAGACTCTCATTCCCCAGGCTGTACATAAAGCCCTTGGAAGGAGGGCTGAGTGCATGAAATACTACAGTTTTAAAGACACAGGCGCGCGCGCGCACACACTCACACACACACACACACTGCGATCCACCCACTCCAGTTCTTCCTTCATTTCCTCCTTTGATGCTTTCCAGAAATATCAGAATTGCCAGAGAGGAGCAGAGTGAGATGTGACCGGAGTGACTGACAGATTTGTTGTACCTCACACTTAACAAGATGAGACAAAATACAGACAACAGAATAACATGAAATGCAAGTCAGAATTATCCTACCTCTACTTTGAGTGACAGCTGTCTACCTCCCCTCTCAGAGTGGGGTCCGCCCTCCCATTCAGTGCTCCCATGCTTGACACTGTCTCATGGGCCTCTTTCCTCCAGATTCTGTCAGTATTGTCGTCATAAAGGCTCAAACATTGCATTGCCTGTGCCCAGCACCGTGAGGACATTTATGAACTGAAGTTGCTCAGGATCGTGGCCCAAGCTCTCTCTGAATGCTCTGTTGTACATCCCCAAGGAGGAGAGCATATTCCTAGTCTGGAATCTCTTCCTCAAACAAGGGTCATCCATTATTCATGTTTGCATGGCTCTTGTGAGGTGTATGCACATTCAGGAAGAGAGGAGAGTAGGTATTAGGTAGTATTTACCAACAGGGCCTGCGCGCTAAGCCTTTAATGTGGGATTTCCCACATGTTCTTCCTAAGATCCCAGGCAGGAAGGCATGGCTGTCCCATCTTATGATTCAGTTTTCCTTTCTAGGAGACAAATTTTTTCTATCAGTAAGCATTCCAAATGACCTCAGAGTGGAGGGTAAACTAATTGCTTAGATTCCCATCAGCCACTGTGGCAAAGCAAACGCCAGCATATTGATTTATGTCTCATTAGAAGGCATTTATTTAGCTTTACTCTTCCATAATTTGTATTCTCCTTCTCTTTGAAGCTTTTATAGCTGTCGACTTCCAAACTCAAGAGGGTTCCCAGCTGCAGCACCCCTGCTGTGGGGCTAGGCTCAGGCCCCAGGGTCCCCTCTGATTGGTTTCAGTTTCTAAAATTGCATTTACTGTGTAGAGTTGGGGGTTGGGGCAGCTGGGGGTGTGTCTGGGTCAGAGGTGAGTTTGCGGGAGTTGGTGCTTTGTGTTCCCCCCCACCACCACCACCATGTGGATTCTGAGTACAGCTCTCAGCTCTTGGAGATAAGCAGGTTTCCCTGTTGAGCCATTTTAGCAGCCTGGAGTTTTGTCTTCTGTAGTGTGTTTTATTTGCAACCTTAATTTCTATAAGCATACCAAGTGAGGGTAGGAGATGAAGCTCTGCTGGAAGAATACCTGCCTTGTGGACATAAAGCCCAGAGTTTTGTCCTCAGAACCACACAAACTGGGCACAGTGGCTCACACCTAGTATCCCAGTATTTGGGAGGTGGAGGCAGGAGGAAGAGAATATCCTGAGCTACATGAGACCATATATCAAAAAAATTAAAAAGGAACCATAGCAAGTGAAGATAGCAAATTACAGAAAGGATGGCAGTTTGCTTTCTGCATCTAAGTGACCTGTAACAGTAGCTGCCGTCTGCTTTCTCTTGCTGTGACAAAACACTGACCTGACTTGGGGAGGAAAGAGTTTATTTGGTTTACTATCCTGGGTCACAGTGCCAAGGCAAGAACTTAGGCAGGACAGGAACCTGGAGGGAGTCAGGAACTAAAGCCTAATTTCTTACACAGCCAGAGATGGTACCCAAGGATGGTACCACGCACAGTGAGCGGCTCTTCCTCCCATCAATCATTAACCAGGAAAATGCCCTCCCCCCAACAGACTTGCCTTCAGGCTTGTGTGGTTGCGGTGATCTCTTAATCAAAGCTCCCTCTTCCCAGATGTGTCTGGGTTTGCATTAAGGTGACAAAATCCACCAGTACAACAGCAGCATCACACATACACTTGGGCACAGGTAGTGAGTGAGTGGGCTGTGAACAGAGCACAGGATGAGAGAGAGAGAGAGAGAGAGAGAGAGAACTGAAGAAAACCTCAACTGGTTTAAAAACATTATTGCAGTAGAAACCTAGACTAGAATGGTGAATACTTGCCCCAGTGAACAAAGCTCTCTTGTTATATGATCCTATGAATTTTAAAACTTCTTATTAGCCATTCGCTCTTATTCTTCAGTGTTGACTTTTGAGGAAATTCCATAGTGTGGGAGAATTTGAGCATGGTATTTAGTGCAAGCACAGGGTTGGTATCTTTGGCCAGTTCCAGCTTTCCAGAGTTTGATTAACTCCAGCTTTTTCTTAGGCTTAGGAGTCCTACACATGGCTGTCCTCTTCACAGCATGCCATTGACATTGAAATAGTGGGCCACTGAGCCGGCAAGAGGGCCACATGCTTGCAATCGCAGCAGATCTCAGGCTTGAGTATAGCTGGGACTATCTAGTGAGACTCCTCTGAAAAAAGAAACTCTTGGGAACTGAGGGGGGGTTCATGGTCTACTCTACTGAGCAAATGAAGATCTGTTCGCAGATACTGAGTTTCAGTTTGATTAATCCATTTGTATCTCACCCGAGTGAGCAAAAAATTGTTTTAGACTTGGACATTAAAAAGTATTGCTATATCTATCATCCTCTGTCATTAATAGATTAGTCCATGTGAATCCACAGTACATTTGGAACACAAGTTTTCTTGTTAGCATGAAATTTGTGCTCTGGCTCAACTCTGATCTTTATAGTCTTTTGGTTTCAGAACAAACTCTGAAGGAGAATGAATGGACTGCTTACAATCAGCTCTTCTCCTTTGTTCTTAG
Seq C2 exon
GCTAAGCAACCTGGGGATTCCTGGAGTGTGGGCTTTTCACATCGGCAGCAGGTTTGCCCTGGACAATGTCCGTCCAGCCACAGTTGGAGGTGACCCTTCCACAGCCCGTTCCTCAGCACTGGAGCACCCCTTCAGCCATGCTGCAGCCCTGGAGAGCTACACCGAGGACAGTTTCCATTACTACGATGAGAATGAAGAGGATGTTGAGTACCCACCAGTTGAACCGGGGGAGGCCCCGGAAGGCCACAGCAGAATTGATGTGTCTTTCAATTCAAAGGCTGATCCAGGCCTTGTGGACGTCGGCACCTCATCTCCAGGTTCCGACCGCGCTTCTCCTTGGCCATATCCAGCACCTGGTAACTGGCCATCCTACCGGGAAACAGAATCGGCTTCTTTGGACCCTCAAACCAAACAGGGGCGGCCGGTGGGAGAGGGAGAGGTTCTGGATTTCAGGGACCCAGCGGAGCTTTTGGACCAGATGGGTACCAGAGCCCCAGCTCCTCCAGAGGCAGATGCAGCTCTCCTAACTCCAGTCAACGAAGACCTTGGGGGCAGAAACACCCAGTCCTATCCAGAGGCAGGGCCAGTGCCTTCAGAGCCAGATGTTCCTGTCCCTCCTCTGGAAGGAGAAGTCCTTCCTCATTACCCCGAGTCTGGTCACGTTCCGCCCCTGAGAGGAGGGAAGTATGTGATAGGACTGGAGGACCACGTGGGATCTAATGATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021806-Nid2:NM_008695:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.754
Domain overlap (PFAM):
C1:
PF061199=NIDO=PU(81.1=98.7)
A:
NA
C2:
PF061199=NIDO=PD(17.9=7.0)
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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: