RnoINT0106781 @ rn6
Intron Retention
Gene
ENSRNOG00000019746 | Paf1
Description
PAF1 homolog, Paf1/RNA polymerase II complex component [Source:RGD Symbol;Acc:1306219]
Coordinates
chr1:85362268-85363145:-
Coord C1 exon
chr1:85363055-85363145
Coord A exon
chr1:85362980-85363054
Coord C2 exon
chr1:85362268-85362979
Length
75 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CAGTGCCTACTTCCTCACAGATG
3' ss Score
7.33
Exon sequences
Seq C1 exon
GAGGCACGCAAGGCCCAGTTGGAAAACCACGAACCAGAGGAAGAGGAGGAGGAGGAGATGGAGGCTGAAGAGAAAGAAGCTGGAGGCTCAG
Seq A exon
GTAAAGGACTGGTCACATCCTGGGAGCCCTGGGAGGGTGGGCAATGGAATCTCACCAGTGCCTACTTCCTCACAG
Seq C2 exon
ATGAGGAACATGAGAAGGGCAGCAGCAGCGAAAAGGAAGGCAGCGAGGATGAGCGCTCTGGCAGTGAGAGTGATCGAGAGGAGGGTGACAGGGATGAGGCAAGTGACAAGAGTGGCAGCGGTGAGGATGAGAGCAGCGAGGACGAAGCACGTGCTGCCCGGGACAAAGAGGAGATTTTCGGTAGTGATGCTGATTCAGAAGATGATGCTGACTCTGATGATGAAGACAGAGGGCAGGCCCACAGGGGCAGTGATAATGACTCGGACAGTGGCAGTGATGGTGGTGGCCAGCGGAGCCGCAGCCAGAGCAGGAGTCGTAGCCGGAGTGCCAGCCCCTTCCCCAGTGGTAGTGAACACTCAGCTCAGGAAGATGGCAGTGAAGCTGCAGCTTCTGATTCCAGTGAGGCTGACAGTGACAGTGACTGAGCCTCAAGACCTTCTAATGAGGTCAGCACAGACACCATTCTTAGGGCAGGGAAGCACTTTTCTAGTTGTCTGTTTTGTGAGCCCTTTGTCCCTACCCTTCAATCTTTGCTGTTAATAAATCTAACTTCTCTGGACTTCATCTCCCAGAGCTTCTGTTCCCCTTCATGTCATCTTCGCACCCCCACCCCCACCCCAGTGCTCAAGGTTCTCCACTTGAAGCACAAAATCAAGTCCCCATTGGATTTCCCAGGAAGTGCATCATAAATGAGAAATTAGAGTCTTTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019746:ENSRNOT00000026778:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF039858=Paf1=FE(7.1=100)
A:
NA
C2:
PF039858=Paf1=PD(12.1=35.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGAACCAGAGGAAGAGGAGG
R:
CACTTGCCTCATCCCTGTCAC
Band lengths:
168-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]