DreINT0037040 @ danRer10
Intron Retention
Gene
ENSDARG00000016981 | bcar3
Description
breast cancer anti-estrogen resistance 3 [Source:ZFIN;Acc:ZDB-GENE-080513-4]
Coordinates
chr8:15053138-15053541:-
Coord C1 exon
chr8:15053370-15053541
Coord A exon
chr8:15053250-15053369
Coord C2 exon
chr8:15053138-15053249
Length
120 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
GATGTGTCTTGTATGAACAGATT
3' ss Score
6.9
Exon sequences
Seq C1 exon
GCATAACACTATGGCGATCGGAGTGGCTGTGGACATCCTGGGGTGTACAGGAAGTCTGGAGGAGCGAGCAGCCACACTAAACCGGATCATTCTGGTGGCTCTGGAGCTCAAAGACTCCATGGGGGATCTTTATGCCTTTTCCTCCATAATGAAAGCACTGGACATGCCTCAG
Seq A exon
GTACCCAGAGGCTCCTTCTATCTGCCACTTTCTATTAACTTACACTACCGATTTTTTTTTTACCCCTCTGCATGTGGTCATATGGAGGCTTTTAAACTGTGATGTGTCTTGTATGAACAG
Seq C2 exon
ATTACCAGACTGGATCACACATGGACTAGCTTGCGGAGGAAATATACACAGACTGCCATCATTTATGAGAAATCTTTAAAACCGTTCTACAAAGGACTCTATGAAGGAGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016981:ENSDART00000138855:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(33.7=100)
A:
NA
C2:
PF0061714=RasGEF=FE(21.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACATCCTGGGGTGTACAG
R:
CACCTCCTTCATAGAGTCCTTTGT
Band lengths:
255-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]