RnoINT0107099 @ rn6
Intron Retention
Gene
ENSRNOG00000009448 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:RGD Symbol;Acc:1311176]
Coordinates
chr6:107252554-107254142:+
Coord C1 exon
chr6:107252554-107252669
Coord A exon
chr6:107252670-107254081
Coord C2 exon
chr6:107254082-107254142
Length
1412 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
CCGATGCTCTCGCTCTGCAGGAG
3' ss Score
9.77
Exon sequences
Seq C1 exon
GCTCAAAATGTGAGGCGCCAGAGCGACACCTGGGGCGCCTGGGGCGAGTGGAGCCCCTGCAGCCGGACCTGTGGAGGAGGCATCAGCTTCCGGGAGCGCCCTTGCTACTCCCAGAG
Seq A exon
GTAGGGAGGGAAGGTCTAGAGCCAGGCAGCACTTTAAAAGAGGCCAAGTGAGGAATGTGTGCCTGCTGGGTGGGAGCCTGACATCAGGGCCATTATGTGGCAGATTCCTTGTGGGAGACTGATGGGGCACCTACCCGAAAACAAGTATTTCCCAGATGTATCACCTCGGTTTCCAAGCTCAGGCTAGATTGAGAAGAATTGGCAGGGATCTACTTTCTCAGCCCTGTGGCGCCATCTGTGCCGGTTGATGGGTTGGTGGTGTGCTGGGCGGGGGTTGGCGCGGGGCCGCGGGGAGGGTGGAGGGTGGGATGGGTGGAGTTGGAGCGTGGGGTCGGGGCTTTCATTTGCAGAGTTAATGAACAGCCAGCCGTGCCCTCAGGTCCCCAGTCCCATAGTGCTTGAGTTTCTTTAACTCCCTCGCAGCTTTAATCAAGTGTAGAAGGACCCCTCCTGACAAGTGCTATTAAACCAAATTATGTGCAGCTGTGCCTGTGAATTGGGCAACTGCAAGGAGGGGAGATCGGGTAACGAAGAAGAGGTAATGAGTAACTGAGGTCGCCTCCTACTGGCCGTTTTTGTGGAACTGTTCTGAGAACCGAGAGTATGCGCAGGGTACATGAGTCATCCCAGCACTAGAAGGAGGGCAGGATAATGAATATGTCAGGCCCTCACCCTTACAGCGGCGGAACACACCTCACCTGGATGATCTCCAAGCAAAACTATAGATAGCATACATACATACATACAAGCATACATACATACATACCCATAGCCAGCTGTCGGTGGTGGTTCACACCTTTAATCCCAGTACTTGGTTGGTAGGCAGAGAGGCAGGCAGATCTGTGAGTTTGAGGCCAGTCTGGTCTACAGAGTGAGTTCCAGGACGGCAGGGACTACCCATAGAAACCCTGTCTTGAAAATCCAAAAAAACAAAACCCAAAACAAAACAATGTCAATCCTCCCCAAACCAACCCCCAAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAACAAAAAACCAGAACTTCTAACGTCCTGGATTATTTATTGTCAAGTTGCAGATCGAACCCACAGGTAGAGGTGTAGTATGTGAAGTTCAAGGGCGTTGTGGCTGGGAGTCAGGTCAAGGGTAGGGACAGTCAGCCTAAGAATCATAAAAAAAGTCTGGTTACGCCCATCCAAGGGATTTGGGTCCAAGTGTAACCCCCACCCCGCAACTGCCTTGGACTCTGGTCCAATCTTGCCCACCAGGGCGCCTCACGGAGAGGCCAGGAGAGCCCAGGAACCGGTGGGGGACATTGGGATCTTTCGCGGGACATTGGGATCTTCCGGGGGATATTGGGATCTTCCCGATGCTCTCGCTCTGCAG
Seq C2 exon
GAGAGACGGAGGCGCCAGCTGCGTGGGCCCTGCACGCAGCCACCGCACCTGCCACACGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009448:ENSRNOT00000012757:3
Average complexity
IR
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=PU(54.0=69.2)
A:
NA
C2:
PF0009014=TSP_1=FE(40.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]