DreINT0076263 @ danRer10
Intron Retention
Gene
ENSDARG00000057498 | habp2
Description
hyaluronan binding protein 2 [Source:ZFIN;Acc:ZDB-GENE-030131-4721]
Coordinates
chr12:31602525-31602959:+
Coord C1 exon
chr12:31602525-31602619
Coord A exon
chr12:31602620-31602727
Coord C2 exon
chr12:31602728-31602959
Length
108 bp
Sequences
Splice sites
5' ss Seq
CAGGCATAG
5' ss Score
0.97
3' ss Seq
ATTGTATACCAAACTGACAGAAC
3' ss Score
1.72
Exon sequences
Seq C1 exon
GAATCCAGATGGAGACCGAGAACCTTGGTGCTTTGTAAAGGAAAAGGGAAAGCTTCAGTGGAACTACTGCAATGTCAAGCCATGCTCTGAAACAG
Seq A exon
GCATAGATTTTTAATTGTACTTTTAAATTAAACAAAGAAACACCCATTGCTCTTCTTGCTCGAACAACATGTTAATTACACATTTTTTATTGTATACCAAACTGACAG
Seq C2 exon
AACCAGAAAAACCCTTAACTACCCCTACAAAACTGGAGTTTTCAGACTGTGGAAAGGCCGCATTTAGCATGATAGCGCCAAGAATATTTGGTGGGAGGAAGTCCCTACCCGAGGCCCATCCCTGGCAGGCCTCATTTCAGGTGCGTCCCAAGGGCTCGAATGCAACCTTTGAGCATAACTGTGGAGGAACCCTGATTGACTCCTGCTGGATCCTGACGGCAGCCCACTGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057498:ENSDART00000122379:8
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=0.064
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(36.8=84.8)
A:
NA
C2:
PF0008921=Trypsin=PU(20.7=62.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGATGGAGACCGAGAACCT
R:
TTGGGACGCACCTGAAATGAG
Band lengths:
242-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]