RnoINT0107090 @ rn6
Intron Retention
Gene
ENSRNOG00000009448 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:RGD Symbol;Acc:1311176]
Coordinates
chr6:107266554-107267723:+
Coord C1 exon
chr6:107266554-107267007
Coord A exon
chr6:107267008-107267585
Coord C2 exon
chr6:107267586-107267723
Length
578 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CACACCTCCCATCTCTCCAGGAT
3' ss Score
10.28
Exon sequences
Seq C1 exon
CCTACCCAGTGCGGTGTCTGCTGCCCAGTGCTCAAGGTTCGTGTGGAGACTGGGCTGCCCGTTGGTACTTTGTGGGATCAGTGGGCCGGTGCAACCGCTTTTGGTATGGCGGTTGCCACGGGAACGCCAATAACTTTGCTACGGAGCAGGAATGCATGGACACCTGCCGGGGGCAGCATGGGCCCCGCCGCCCTGAGGCAGGAGCAGCTGGACATCGTGTCCACATGGATGGTGGTCAACGTGGTCCCGGAGGCCAGCAGGAACCTGATTGGCACAGGATAGAAGCCACAGTCCCGAGACTGCCCTCACCTTCTGGAAGCCCTTGGTCGAGAGAACAAGAGCCTGGACCCGGGCAGGCGCCACACATCCCAGCCCAGGGGAAACGGCCCAGAGTCCCTGGACTGGATAGAGATGCTAGGCCACCAGTGCGGCCTACGCACAGCCCCTCCTACAG
Seq A exon
GTGAGCCTGCTTCCCAGGTAAGGGCACAGGATGCCCAAGCCAGCGCTGAGCCCCATTCTATGCTTTTCTGATCCCTAGACAGTCCAGCCAGGTGGGTCATGTCATCATCTCGTTACATAGGGGTGCAGAGGGATAGCAGAGGTGCCGGCTCCTAGAGTCGTTCTCTGACCTTAGCCACTCTACCAAGGTCTGTGTCCAGGTAGAAAAGCTAGCTCCGAGCCTCAGTTTCTTCACTTGTAGAATACGGATAATGTTTCACTCCCTGAATATAGAGTAGGTTTTGATATTGTTGCTATTATCACTGTTATTCCATGGTATTAATAAGGGGTTTAGGGTCCAAAGCGCACACTGCAAGGGTCAAACATTCTGTGTCGTGCGGCCCTTCTTGCTCTCCTCCTACCCCCTTGGACTGTCAGCTTGGATCTGCTGCACAGCTGTTTCAGGGCAGTGCCTGGGAATGTGTCAGGGAAGGCTGGTGTCTCCCGTGGGACTCTGGCCTTACAAATGCCTACGAGAGAGTTTACCTGGCCGTGCTCCTGTGCCAGGGGGTGGCAGATACACACCTCCCATCTCTCCAG
Seq C2 exon
GATCAACTTGGCAGACTCGGAACCGTCCCTGGTACAGGCAGCTCCAGGGCAGGCGGTCCAACTCTTTTGCCCTGGCAACATCCCCCCGGAATTCCAGGCAGGGTGGCAGAAAGAGGGCCGGCCCATCTCCTCTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009448:ENSRNOT00000012757:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.678 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0001418=Kunitz_BPTI=WD(100=34.9)
A:
NA
C2:
PF0767911=I-set=PU(50.6=89.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
ACGCCAATAACTTTGCTACGGA
R:
GTTCCGAGTCTGCCAAGTTGA
Band lengths:
354-932
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]