DreINT0076264 @ danRer10
Intron Retention
Gene
ENSDARG00000057498 | habp2
Description
hyaluronan binding protein 2 [Source:ZFIN;Acc:ZDB-GENE-030131-4721]
Coordinates
chr12:31602728-31603182:+
Coord C1 exon
chr12:31602728-31602959
Coord A exon
chr12:31602960-31603039
Coord C2 exon
chr12:31603040-31603182
Length
80 bp
Sequences
Splice sites
5' ss Seq
CATGTAGGT
5' ss Score
4.94
3' ss Seq
TATATGCATAACCATGCTAGCGA
3' ss Score
0.62
Exon sequences
Seq C1 exon
AACCAGAAAAACCCTTAACTACCCCTACAAAACTGGAGTTTTCAGACTGTGGAAAGGCCGCATTTAGCATGATAGCGCCAAGAATATTTGGTGGGAGGAAGTCCCTACCCGAGGCCCATCCCTGGCAGGCCTCATTTCAGGTGCGTCCCAAGGGCTCGAATGCAACCTTTGAGCATAACTGTGGAGGAACCCTGATTGACTCCTGCTGGATCCTGACGGCAGCCCACTGCAT
Seq A exon
GTAGGTTGGATTTATTTGTTGTTTCGTTAAGTCTATGAAGTGTTAAGTCTCAATTTTTTTTATATGCATAACCATGCTAG
Seq C2 exon
CGATGAGAATGATGAGGTGAGGGTGGAGTTGGGTGGTGTGAACCTGGAGAAAGATGACCCTGATAAACAGTTTGTGGAGGTGGAGAAAATCATTGTTCATGAGAACTACACAGAGACTTTTGACGCCCTCTATAATGATATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057498:ENSDART00000122379:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.082
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(20.7=62.8)
A:
NA
C2:
PF0008921=Trypsin=FE(20.3=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:
GGAACCCTGATTGACTCCTGC
R:
GGGCGTCAAAAGTCTCTGTGT
Band lengths:
175-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]