RnoINT0107102 @ rn6
Intron Retention
Gene
ENSRNOG00000009448 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:RGD Symbol;Acc:1311176]
Coordinates
chr6:107257058-107257961:+
Coord C1 exon
chr6:107257058-107257188
Coord A exon
chr6:107257189-107257837
Coord C2 exon
chr6:107257838-107257961
Length
649 bp
Sequences
Splice sites
5' ss Seq
CGAGTGAGT
5' ss Score
8.49
3' ss Seq
CCCCCTCCCTCTCCCCGCAGGTC
3' ss Score
16.51
Exon sequences
Seq C1 exon
CCCCCAATAAGTGTGAGCTGAACTGCATTCCCAAGGGGCAGAACTTCTACTTCAAGCACAGGGACGCTGTGGTGGACGGGACACCCTGTGAACCCGGCAAACGAGACATCTGTGTGGAAGGCGTCTGCCGA
Seq A exon
GTGAGTTAAGCCCCTTCCCAGCTGGTTGGCGAATTATTATGGGTGGTGTCCTCCAGCATCCGCAGGACCAGGAGCTCTGTGGCTTCTTAAGTCACTTGCTCCCAGAATGCAATGCAGTCATCACGGACGTTCTCTGACCGCTTCCACTTTGCCCTTGAGAACACTAATCTTATCAAAGAAACTCTCTGGATGGCTAAAGCGGCCCTCAACCAAACCCAACCAACTGTGAAGGGGTGGCGGTAGGTGATGGAAGATGCTAGAAATCGCTCTACCCATTCCTTGCTTTCTTCTCCGGGTCAGCTTCAGACTCATGAAGGCTCTTCTCAGGAGCCTGCGACAAGAAGGCAGCTCCACGCCTCTTACTACACCAATCTGACAGCTCCCGGAGTCCCCAGCAGCTTGAGTCCGAGCTGTCTGTCCTGTCAGCCTTGGCTCACCAATCTCTGAGGAGAGGAGAACAGCCCTTTGGCATTCCTGAGCCCACATTTATGGAGTTCCACCCAAAATGGGAGAGACAGGACCTCCAAAGGGAGGCAGAGAGTAGTTAGTTAGTGGTTAGGGTGGGTCTGAGCCATTCCACATCCTGCAGTCCGCCTGGGGCATTTATCTCACCTTGCTCTCACTCCCCTCCCCCTCCCTCTCCCCGCAG
Seq C2 exon
GTCGTTGGCTGTGATCACAAGCTGGACTCAACCAAGCAAGAGGACAAGTGTCTGCAGTGTGGGGGCGATGGTTCGTCCTGCTACCCAATCACAGGAACCTTTGATGCCAATGATCTCAGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009448:ENSRNOT00000012757:6
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:
NO
A:
NA
C2:
PF059869=ADAM_spacer1=PU(12.1=33.3)
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:
CCCCCAATAAGTGTGAGCTGA
R:
TCTGCTGAGATCATTGGCATCA
Band lengths:
254-903
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]