MmuINT0115066 @ mm9
Intron Retention
Gene
ENSMUSG00000021223 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:MGI Symbol;Acc:MGI:2386139]
Coordinates
chr12:85117304-85118152:+
Coord C1 exon
chr12:85117304-85117511
Coord A exon
chr12:85117512-85117969
Coord C2 exon
chr12:85117970-85118152
Length
458 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
GCTGATATCTGTCCTTACAGTGC
3' ss Score
7.43
Exon sequences
Seq C1 exon
CTGGAAGGTAGGCCCATGGACGCCCTGCTCGGTCTCCTGCGGGGGTGGAGTCCAGTCTCGCTCTGTCTACTGCATATCCTCAGATGGGACTGGTGGCCAGGAAGCTGCTGAGGAGACCCAGTGTGCTGGCCTAGTTGGGAAACCCCCTACCACACAGGCTTGCAACCTGCAGCACTGTGCAGTCTGGAGCGTGGAGCCCTGGGGAGAG
Seq A exon
GTGAGGCCCTGCCTAGGACTAGGAGCTGTGTCTTGGACCTGGGCTTGAAATGCTTGCCTTCAGCTGAGGTCCTCAGAGAGTAGGGACCTAGCTGGCCATCTTGGGAGTTGTGGCCAAAGCTGGGATGAGACACAACTCTAGACTCTGGACCAGGAGTCTGTAACTCCAGCTCCAGGGGATCGGACACCCTCTTCTGGTCTTATTGACATGCACACACGAGTAGAAGCACAGAGAGACATGCATAGACACATAAGTAAAAATAAATCTAAAAAGAAGAGGAATGTGAAAAGCCCTCTTCAGGCTGTGCAACCTCAGAACAGTGACTCAGCCTCTCTGGGCTCAGGAGTGGGATAAGGGCAGGAGATGCCACCTGTTCTCTGAGCCACAGCTTCCAGCTGTCCCAGCTGACCTGGCTCTCCAGGGCTGGGGGGCATCCCTGCTGATATCTGTCCTTACAG
Seq C2 exon
TGCTCAGTTACATGCGGGACTGGCATCAGGAAGAGGAGTGTCACCTGCCGAGGGGACGAGGGGTCTCCGGTCCATGCTGCAGCGTGCTTGTTGAAGGACCAGCCAACCCTCACGGAGCCCTGTGTACAAGAGGCCTGCCCTGTGTTCCGTGGCCAGGCCTGGCATGTTGGCTCATGGAGTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021223-Papln:NM_130887:12
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=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=82.9),PF0009014=TSP_1=PU(13.0=10.0)
A:
NA
C2:
PF0009014=TSP_1=PD(83.3=73.8),PF0009014=TSP_1=PU(12.0=9.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTCCAGTCTCGCTCTGTCT
R:
AGACTCCATGAGCCAACATGC
Band lengths:
343-801
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: