DreINT0120736 @ danRer10
Intron Retention
Gene
ENSDARG00000057583 | prrc2c
Description
proline-rich coiled-coil 2C [Source:ZFIN;Acc:ZDB-GENE-081104-156]
Coordinates
chr20:15149666-15150114:-
Coord C1 exon
chr20:15149954-15150114
Coord A exon
chr20:15149821-15149953
Coord C2 exon
chr20:15149666-15149820
Length
133 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CGATTTATTTTATTCCTCAGGTG
3' ss Score
9.8
Exon sequences
Seq C1 exon
TGCTGCTGCTCAGAATGCAGAGGGTGCTCAGGCTGGTACAGGTCAGAAGCCTGGAAAAGAGCCAGCAACCAGCCGACGGAAGGAGGAAGCAAAACAAGCTGTTAAAAAACCCAAAGAGAAAGAAAATGCCTTGTCTCAGTTTGATCTCAACAATTATGCCA
Seq A exon
GTGAGTGTTCATGTAACCCAGTGTAATGTGATTAATTACAGTCCAGTATTGTTTTAATGATATCTTTATACTATAAGTATTAATGTTTATAAATTAAACAAAACTCCTTTATCCGATTTATTTTATTCCTCAG
Seq C2 exon
GTGTAGTGATCATTGATGATCACCCAGAGGTCACGACACTCGAGGACCCACAGTCTAACACAAATGATGATGGGTTCACAGAAGTTGTTTCACGGAAACAGCAGAAACGGTTGCAGGATGAGGAGCGGAGAAAGAAGGAAGAACAGACTGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057583:ENSDART00000135212:16
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
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAAAAGAGCCAGCAACCAG
R:
TCCTTCTTTCTCCGCTCCTCA
Band lengths:
249-382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]