DreINT0046632 @ danRer10
Intron Retention
Gene
ENSDARG00000011845 | chn2
Description
chimerin 2 [Source:ZFIN;Acc:ZDB-GENE-091020-5]
Coordinates
chr16:20512581-20513248:-
Coord C1 exon
chr16:20513143-20513248
Coord A exon
chr16:20512753-20513142
Coord C2 exon
chr16:20512581-20512752
Length
390 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
TTTGGTCTGTTTATTTCCAGAGT
3' ss Score
8.25
Exon sequences
Seq C1 exon
AAATAACAGACCCTGATTCCAGACTGGAGGCAGTTCACGACGGTCTCCTCCAGCTTCCTCCAGCCCACTATGAGACCCTGCGGTACTTGATGACACACCTGAAGAG
Seq A exon
GTAAAACCACAACACATTAATCTCCCAGGCACATTTACTGCTCTCACAGGACTCCGCATTGAGCTGGTGGCTGTTCAGGTTTTTTGTTGCATTTAAGCAGTTTACCTGTGGCTTTATTCCACCAGTTTACTTCCCGTCACACTGTAATATAAAACCTCTAAGACTGATTAGAGGAAAGGAGAAACCCAATATGGCACTTTTTTTGGAACTACAGTACAATACCTTTAAAACAATCCTTGAGGATTTATGCTTTCCTGTAACTTACCAAGCCAGCTTTGCCACTTTTCCCTATCAATGGAAAGTACTATATTTCAATTGACTACCTGCATGTTTATTGCCAAAATTGTATTGTCATGCATTTTTCCACTCTTTTGGTCTGTTTATTTCCAG
Seq C2 exon
AGTCACAATGTACGAGAAGGACAATTACATGAATTCAGAGAACCTCGGAATCGTTTTTGGCCCAACGCTCATGAGGCCACCAGACCTGAACACACTCACCACTCTCAACGACATGAGATACCAAAAACTGATAGTTCAGCTCCTCATCGAGCACGAGGACATCTTGTTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011845:ENSDART00000139776:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(22.7=100)
A:
NA
C2:
PF0062022=RhoGAP=PD(20.8=55.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATAACAGACCCTGATTCCAGACTG
R:
TTAAAACAAGATGTCCTCGTGCT
Band lengths:
278-668
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]