MmuINT0115068 @ mm9
Intron Retention
Gene
ENSMUSG00000021223 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:MGI Symbol;Acc:MGI:2386139]
Coordinates
chr12:85118304-85119513:+
Coord C1 exon
chr12:85118304-85118445
Coord A exon
chr12:85118446-85119432
Coord C2 exon
chr12:85119433-85119513
Length
987 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
TATTACTTGGTTCCCTACAGAGG
3' ss Score
7.63
Exon sequences
Seq C1 exon
TGCTCTAAAAGCTGTGGTTCCGGCATTCGGAGAAGGCAGGTTGTTTGTACCATCGGGCCGCCTGGTCGTTGTGTGGACCTGCAGTCGTCCAAGCCTGCCGAGATGGAAGCCTGCAACAGACAGCCCTGCCATCTTCCTCAGG
Seq A exon
GTAAGGATAGGGCAGGGAGGGCGGCACCCCACCTTGTCTCCTGGCTGCTCTCCCACACTCTGGCCATTGCTGCCCCGGCTATTGCCAAATCCATGTATGGATACCTGTGAACTCAAACTTGCCCAGTGTGTTGTTTTAGATGTCAGCTTTGCATTAATTTCTCCGTGCTGCATGCCCCACCTGACCAGCTTCTTGAGGGCTAGGTCCATGGCTCCTGTTCCTCTCTATACTCTTCCCCCAACGTACCTATGATGCGGGAGGTACTCAGCAACTGTTTGTTGAATGACTGAGTGAGTGAAGAGAGAACACACATACTGCTTCTTGCCTGTCCACCCTCCCCTTCTCCCCCATCTCTCTAGGGAAGAAGGTCTCTCAGGTATGGGGGCCTTCTGCTGAGGGAAGGGCGCAAAGGCCGGATTTCTTTGGTGTGTGGATATGACACTGAAGGTAGTCACGGTCATGGATCATGGCTAAGCTAGGCGTGCTGGGAGTGCTTAGCTAGTTTCTTCCTGATTTATAAAAAACAAAACAATAAAAAACATTTCTCTGATTTTTATGATTGAAAAAATCTAGCAATTTAATTAAGACTATTAAGCACTAAATGCCATAAAAATTCATTTTTTCTCATGTTGGGGCTCAAACCCAGGGCCTGGTTCATGCTACGCAAGAGCCCTACCTCGGCTGCCTGTGGCTTCTGAGTCACTTGGTCTAACAGGACTTAGTTTTGCTAAGTTGGCAAGGTAAAAAAAAGAAAAATCCACACACATAGACAAGCTGCAGAAAATCTTGGAGCCAGGTGTGTTGATACACACTGTAATCCCTACACCCAAGAGGCTGAGGCAGGAGGATTCTTGTGAGTTTAAGGCCAATAGTCACAAAGTCTCTGCCGAGATGTGTTTCACGGGTTCGGGGTATTTGCTGTTCTCTCTGGTGTTGCTTTTGTCTGGTTCTGCCCTCCACACCCGCCTATTACTTGGTTCCCTACAG
Seq C2 exon
AGGTCCCTAGTATACAGGACCCAAGGACCCGCTCCTCAGACCCCAGGATGCTTTCAGGCCCTCGAGTGTCCCCAGTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021223-Papln:NM_130887:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(84.0=87.5)
A:
NA
C2:
NO
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:
TCTAAAAGCTGTGGTTCCGGC
R:
CTGAGACTGGGGACACTCGAG
Band lengths:
220-1207
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: