RnoINT0107089 @ rn6
Intron Retention
Gene
ENSRNOG00000009448 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:RGD Symbol;Acc:1311176]
Coordinates
chr6:107265250-107267007:+
Coord C1 exon
chr6:107265250-107265388
Coord A exon
chr6:107265389-107266553
Coord C2 exon
chr6:107266554-107267007
Length
1165 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
GTTCCATCCCCAACCCACAGCCT
3' ss Score
6.61
Exon sequences
Seq C1 exon
GACCCCAAGATCCACCAATCTCAGGCCCATCCAAGCGAGATCAGCGAGTGTCGAAGCTCTCAGTTTGGCTGTTGCTATGACAATGTGGCTTTTGCAGCTGGTCCTCTGGGGGAAGGCTGTGTGGGTCAGCCCAGCTATG
Seq A exon
GTGAGACGGTCCCCCTTCTGATCCTTAACTCAGTGAATCCTCATCCCCGACCCATGGCCAGATACCCCATTGACTCGTTTCCTAATACATGAGCACACACCAGATACCAGGCCGGAGGGATGTTCTAAGATGTTTACAGATGAGTGTTCCTGTATCAAGATGTTTACATTGGTCTGGGAGGATTTTAAGTGGAACCTCAGTGCTGAGGCTGTCTCAGTTGGTAGAGTTGCTTATGTAGCACGCACGAAGCCCTGGGCTCAACCTTCGGTGCTACATAAACCGGATATGGTGGTACAGGTTTATAACCCCAGTACTTGAGAGGTAGAAGCAGGATGATCAGAAGTTTAAGGTCATTTTTGGCTACATACTATGTTCAAGGCCAGCCTGGGATATATAAGATTATGTCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCGCAATCAGGAGAGGGGAGGGGAGAGGAGGAGAGGAGGAGACATCTCCATCCTATGTCTGGGATCAGGCTCTTCCCAAAGGAAGGAAGGGCAGGGCAAAGCGGGCAGTGTGCTGTATGTAGGGCTTGTCCACACCCAAGATGGGGTGTGTGTTGCAGGGACTAGAAGCTGAGTTTTAGAGAGAAGGTTGGGGCTGGAGCACAGGAGGGTCGATGGGTGGCGCTTCCAGGACCTGTCATGGGAATTTGCATCTGGAGTCTGACAGGCTGGTGGCCTAGGGCTCTGCGGAAGGACAGGCAGCCAAGGCCACTTGGACCGTGAAGAGAGGGAGCAGGCTACCTAGGCTGACCAGCAGGGCTGTCCTGATGGTCACATTCATAGACCCTCAGGGTCAGGCACAGTGAAGTCCAACTCCCAGCTAGTTTGTGTGTGCACCACACCGCGAGGCCCAGGCTGGAAGGGACATCAGCTTACCCAGGAAGCCCTGGTCTTTTCTTCCCGGGTACTCTAGTTTGGTATGGGTGGAGACTGTTGTGACCTAAGCAAGTCTAGGACAGATCCTGAGAGTGTCCTGAGCTCCTGGGGGAGGTCAGGGGTCCTGGCAAGAGAGGGGCTGTGCTTTACAAAGCAAGACAGGTGTGTTCCGTAAGTGAGTAGCGTTCTCACGGGCCACCCAGGTGACACGTTCCATCCCCAACCCACAG
Seq C2 exon
CCTACCCAGTGCGGTGTCTGCTGCCCAGTGCTCAAGGTTCGTGTGGAGACTGGGCTGCCCGTTGGTACTTTGTGGGATCAGTGGGCCGGTGCAACCGCTTTTGGTATGGCGGTTGCCACGGGAACGCCAATAACTTTGCTACGGAGCAGGAATGCATGGACACCTGCCGGGGGCAGCATGGGCCCCGCCGCCCTGAGGCAGGAGCAGCTGGACATCGTGTCCACATGGATGGTGGTCAACGTGGTCCCGGAGGCCAGCAGGAACCTGATTGGCACAGGATAGAAGCCACAGTCCCGAGACTGCCCTCACCTTCTGGAAGCCCTTGGTCGAGAGAACAAGAGCCTGGACCCGGGCAGGCGCCACACATCCCAGCCCAGGGGAAACGGCCCAGAGTCCCTGGACTGGATAGAGATGCTAGGCCACCAGTGCGGCCTACGCACAGCCCCTCCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009448:ENSRNOT00000012757:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.191 A=NA C2=0.678
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0001418=Kunitz_BPTI=WD(100=34.9)
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:
GATCAGCGAGTGTCGAAGCTC
R:
ACGTTGACCACCATCCATGTG
Band lengths:
343-1508
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]