MmuINT0115073 @ mm10
Intron Retention
Gene
ENSMUSG00000021223 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:MGI Symbol;Acc:MGI:2386139]
Coordinates
chr12:83781821-83783018:+
Coord C1 exon
chr12:83781821-83782295
Coord A exon
chr12:83782296-83782880
Coord C2 exon
chr12:83782881-83783018
Length
585 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ATACCCTCCCATCTCTCCAGGAT
3' ss Score
10.63
Exon sequences
Seq C1 exon
CTTACCCAGTGCGGTGTCTGCTGCCCAGTGCTCAAGGGTCATGTGGAGACTGGGCCGCCCGTTGGTACTTTGTGGCATCGGTGGGCCGGTGTAACCGCTTTTGGTATGGCGGCTGTCATGGCAACGCCAATAACTTTGCATCGGAGCAGGAGTGCATGAACACCTGCCGGGGACAGCATGGGCCCCGCCGTCCTGAGGCAGGAGCCGCTGGGCATCGTGCCCATGTGGATGGTGGTCAACGTGGTCCTGGAGGCCAGCAGGAACCTGACTGGCACAGGGCAGGAGCCACAATCCCGAGACTGCCCTCCCCTTCTGGAAGCCCTTGGCGGAGAGAACAAGAGCCTGCGCCAGGGGAGCCACCCCACATCCCAGCCTATGGAAACCGGCCTGGAGGCCAGGAAATCCGGCCCAGAGTTCCTGGACTGGACAGAGAGGCTAGGCCAGCAGTGCCGCCTACACATAGCCCCTCCTACAG
Seq A exon
GTGAGGCCTGCTTCCCAGGTAAGGCATAGGATACCCAGGCCAGGGCCGAACCCCGTCCCATGCTTTATTTCTGACTCCTAGACAGTCTGGCCAGGTGGATCTTGTCATCATCTCATTACAGATAGGGATGCTGAGGGTTAATAGAGGCATCAGTTCCTACATTCTTTCTCTCATCTAGCTACTGTACCAAGGGCTGTGTCTAGCTGGAAAAGCTAGCTCTGAACCCCAGTTTCTTCACTTGTGAAATAGTGATCATGTCTCACTCCCTGAATATATTGTAGGTTTGATATTGCTTGTTATCTATCAGTCGTCCCATTGTATGAATAAGGGGCTTGGGGAAATGAGCACTTAAGGAACCAAAACACATGCTGCAAGGGTCAACCATTCTGTGTCGGTCGGCTCCACACATGGTCTGTCCTGTGGCCCTTCTCAGTCTCCTCCTACCCCCTTGGGCTGTCTGCTTCAGGGGCAGTGCCTGGGAGTGTCTCCCATGGGACTCTAGCCTTACAAATGCCTACAAGAGTGTTTCCCTGGCCATGCTCCTGTGCCAGGAGGCGGCAGATGCATACCCTCCCATCTCTCCAG
Seq C2 exon
GATCCGATTGGCAGGCTCGGAACCCTCCCTGGTACAGGCAGCTCCAGGGCAGGCGGTACAACTCTTTTGCCCTGGCAACATCCCCTCGGAATTCCAGGCAGGGTGGCAGAAAGAGGGCCGGCCCATCTCCTCTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021223:ENSMUST00000121733:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.692 A=NA C2=0.979
Domain overlap (PFAM):
C1:
PF0001418=Kunitz_BPTI=WD(100=33.3),PF0768612=V-set=PU(0.1=0.0)
A:
NA
C2:
PF0768612=V-set=PU(52.3=97.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTGGATGGTGGTCAACGTG
R:
GAATTCCGAGGGGATGTTGCC
Band lengths:
347-932
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