RnoINT0107104 @ rn6
Intron Retention
Gene
ENSRNOG00000009448 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:RGD Symbol;Acc:1311176]
Coordinates
chr6:107258366-107258705:+
Coord C1 exon
chr6:107258366-107258446
Coord A exon
chr6:107258447-107258532
Coord C2 exon
chr6:107258533-107258705
Length
86 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
GACAGGCTGGGTTTCCACAGCCG
3' ss Score
4.19
Exon sequences
Seq C1 exon
GTTACAACCAGATCTTCATCATTCCTGCTGGGGCCACTAGTATTCACATCGAGGAAGCTGATGCCAGCAGGAATTTCCTGG
Seq A exon
GTGAGAGGTGGTTTGGAGCTGGGCAGCCTGGGGCGCAGAGAGGCAACGCGCTGCCCCACACGCCCTGACAGGCTGGGTTTCCACAG
Seq C2 exon
CCGTGAAGAGCATCCGCGGCGAGTACTACCTCAATGGGCACTGGACCATTGAGGAAGCCCAGGCTCTTCCGGTGGCCAGCACAGTCCTACAATACGAACGGGGTGTGGAGGGAGACCTGGCTCCTGAGCGGCTCCAGGCACGGGGTCCCACCTCGGAGCCCCTAGTCATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009448:ENSRNOT00000012757:8
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=0.138
Domain overlap (PFAM):
C1:
PF059869=ADAM_spacer1=FE(23.3=100)
A:
NA
C2:
PF059869=ADAM_spacer1=FE(49.1=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:
CTTCATCATTCCTGCTGGGGC
R:
CTCCACACCCCGTTCGTATTG
Band lengths:
178-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]