MmuINT0110618 @ mm9
Intron Retention
Gene
ENSMUSG00000049134 | Nrap
Description
nebulin-related anchoring protein [Source:MGI Symbol;Acc:MGI:1098765]
Coordinates
chr19:56396213-56398485:-
Coord C1 exon
chr19:56398378-56398485
Coord A exon
chr19:56396525-56398377
Coord C2 exon
chr19:56396213-56396524
Length
1853 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGA
5' ss Score
5.46
3' ss Seq
TTTGCTTCTCTGATTCGCAGTTC
3' ss Score
7.63
Exon sequences
Seq C1 exon
AAAGTCTACAGGAATGCCTGGGAGCAGAGCCGGGCTGGTGGCTATGACTTCAGGCTGGATGCTATCCCATTCCAGACTGCACGGGTGTCCAGGGATATCGCCAGTGAT
Seq A exon
GTAAGACTCCAAACCCTGTCTGCAGATAATAGAGTTCTCCCTAGGTATCCAAGAAAGGCACAGGGCAGACTCACGGGCCACCAGATTGCCTTCCTCCACACTAAAACAGAAACAGAATGTATGTTTCAAAGGGGCGAGACCACAGGCCTGGCAGTTAGGATTGTAGGCAGAAATATGGGTTGGGAAGGTTTTTGTTTTTGTTTGTGTGTGTTTTTTGTTTTGTTTTGTTTTGTTTTTTGGAAACTTTTTGAGGAGAGGTGTGCAGCAGCTGGTGTGGTACATCTGAAGCCAAGGAACCTATGCTTCTGTGTGTGCTTAGTCTGTAGTAACGAACCTCTTGTAAAACTGCTTCTGTGCAAGCACGAAGACTTATGTTCAGACTCACAGATCCCATGTAAAGCCAGCTGTGGTGGTTTGCATCTGTGGCCCCAGATGTGGTGGTTTGCATCTGTAGCCCCAGATGTGGTGGTTTGCATCTGTAGCCCCAGATGTGGTGGTTTGCATCTGTAGCCCCAGATGTGGTGGTTTGCATCTGTAGCCCCAGATGTGATAGAGCACTGGCTAAATGAGACTTTATTTCTAACACTGTAGAAGGTCAAGACAGACATACAGTGTTGTCCTCTGTCCTCCACAAGTACACTGTTGCCAACTCACACACTCGAACTGATACATACACACAAGATAAAATAAGGAGTGAGACTGTAAAATGAACTAGATTCTTCACTTTTAAGTGGTTTGAGGAGCATTAGCCTTGGTCCCTGAATGTAGGGAGGACAGAAGAAAGAATGACTCACTGCCATTCTTGTTGGTGTGGTACTTACAGCAGCCATACAGGGTTACAGATGCATTCTTTGGCACCCAAGGTTACAGGTGCACCCTTCCACACCTGAGGTTACAGGTGCACCCTTCCACACCTGAGGTTACAGGTGCACCCTTCCACACCTGAGGTTACAGGTGCACCCTTCCACACCTGAGGTTACAGGTGCACCCTTCCACACCTGAGGTTACAGGTGCACCCTTCCACACCTGAGGTTACAGGTGCACCCTTCCACACCTGAGGTTACAGGTGCACCCTTCCACACCTGAGGTTACAGGTGCACCCTTCCACACCTGAGGTTACAGGTGCACCCTTCCACACCTGAGGTTACAGGTGTACCCTTCCACACCTGAGGTTACAGGTGCACACTTCCACACCTGAGGTTACAGGTGTACCCTTCCATACCTGAGGTTACATGTGCACACTTCCACACCTGAGGTTACAGGTGCACCCTTCCACACCTGAGGTTACAGATGCACACTTCCACACCTGAGGTTACAGATGCACACTTCCACACCTGAGGTTATAGGTGCACACTTCCACACCTGAGGTTATAGGTGTACACTTCCACATCTGAGGTTATAGGTACACAGCTCTACACCTGAGGTTACAGGTGCACACTTCCACACCTGAGGTTACAGGTGCACACTTCCACACCTGAGGTTATAGGTACACAGTACATATCCTAGGTTACAGGTGCATATTATTATATCTGAGGTTGCAGGTATATACTACCACATCCTAGGTTACAGGACATCATCAATGAGTGTGCATTGCATTTCAGGCCCATATCATTGACCTCTCTCAACACCCAATGGGGTGAAGATCTATGCTGCTGTTTTATCAGATGTTCAGAGAGGCTCCACAGCCCATACAGCTCCAAGCCCATACAGCTTTGTTTGATTCCAAAGCTTTCGCCCTTATCCACTGTTGATCAAGCTTCCTGCTGAAGTCCTGGGGTCTGTCCCCTCTAGGGAGGCTGGCTTTGAAGGGGAAGGGCATCCCCATCACCTCTCTTTGCTTCTCTGATTCGCAG
Seq C2 exon
TTCCGGTACAAAGAGGCATTTCTGAGGGACCGGGGCCTACAGATTGGGTACCGTAGCATCAGTGACGACCCGAGGACGACGCACTTCCTCCGAGTCGGCAGGCTCCAGAGTGACAACGAGTACAGGAAGGCCTTTGCCAAAGGTCGCTCCCAGTTCCACAGTCGCGCTGACCAACCAGGCTTCCTCCAGGCCAAGAGGAGCCAGCAGCTGGCCAGCGATGTCCTCTATAGGCAGCCACTGCCTCAGCACACCAGCGACCCAGAACAGCTGGGCCTGAAGCATGCCCGGAAAGCCCATCAGCTGCAGAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049134-Nrap:NM_198059:38
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.514
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=30.6),PF0088013=Nebulin=PU(55.2=44.4)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=10.6),PF0088013=Nebulin=WD(100=27.9),PF0088013=Nebulin=WD(100=21.2),PF0088013=Nebulin=PU(53.6=14.4)
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:
TGGCTATGACTTCAGGCTGGA
R:
CTTCAGGCCCAGCTGTTCTG
Band lengths:
349-2202
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: