DreINT0120732 @ danRer10
Intron Retention
Gene
ENSDARG00000057583 | prrc2c
Description
proline-rich coiled-coil 2C [Source:ZFIN;Acc:ZDB-GENE-081104-156]
Coordinates
chr20:15153378-15153983:-
Coord C1 exon
chr20:15153808-15153983
Coord A exon
chr20:15153640-15153807
Coord C2 exon
chr20:15153378-15153639
Length
168 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
TCTTCTCCTAAATTCCTCAGGAA
3' ss Score
7.94
Exon sequences
Seq C1 exon
TTGAGGAGCCTCAGTTGTCATTGTCCAGACTAGATCATTCTGTTAGCGAAGATGTTCCACTTCCATCTCAACTGGAGAATGAAGGAGATGCTGGGACTTCCATTCGTCCTTCTGTAACCTCTGGATACTCAAAACAGTTCCAGAAATCTCTGCCACCTAGGTTCCTTAGACAACAG
Seq A exon
GTACTTCACATTGTGTTGACTTTGTTTCTAAAAGATCAAAATGCATTCACTCATTATATATTTTTAAATCTGTTTATTCATATTGCCTCACTGGTATTGTTAGAGATTCTTTGTAGATCCTGCGTTTAGCTATTAGAGCTTTCATCTTTCTTCTCCTAAATTCCTCAG
Seq C2 exon
GAACAACTTAAACAACAACAGTGGCAGCAGCAACATCAGCAGCAGCAACAACAGCAGCAGCAGCAAGGTGGAGGAGGTCCGGTCTCTCCTTCAGGGGGTTCAGTTCCTCCTCAGCATAGATCTCTGTACCAACCTCTTGGCCCCCACCACCAACATCTTGCCTCAATGGGCTTTGACCCAAGGTGGTTAATGATGCAATCTTACATGGACCCTCGTATGATGTCTGGAAGACCACCTATAGACATTCCTCCTATGCACCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057583:ENSDART00000135212:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCTGGGACTTCCATTCGTC
R:
TGAGGCAAGATGTTGGTGGTG
Band lengths:
254-422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]