DreINT0076256 @ danRer10
Intron Retention
Gene
ENSDARG00000057498 | habp2
Description
hyaluronan binding protein 2 [Source:ZFIN;Acc:ZDB-GENE-030131-4721]
Coordinates
chr12:31604212-31605164:+
Coord C1 exon
chr12:31604212-31604357
Coord A exon
chr12:31604358-31604464
Coord C2 exon
chr12:31604465-31605164
Length
107 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTT
5' ss Score
4.83
3' ss Seq
ACTTGGTTTAACATTTGTAGGGT
3' ss Score
6.09
Exon sequences
Seq C1 exon
ATCATGGCGTTAGTACTCAGCTGCTGGATGCCAAAGTTCTCCTGATCTCTCAGAGCCGCTGCATGTCTCGTAACGTTTATGGAAACAGAATGGACGATTCCATGATGTGCGCTGGATATATGCAGGGAAAGATCGACTCTTGTCAG
Seq A exon
GTGCTTACCTATTGCAAGTTTTTGTAACATTATTTCATTTGAATTGAATAGTGTATCATTTTGTATGCACATCACATGACAATTTTTACTTGGTTTAACATTTGTAG
Seq C2 exon
GGTGATTCCGGTGGACCCCTGGTTTGTAAGAAGGACAATATTCATTACATCTATGGTGTGGTGAGTTGGGGCGACAGCTGTGGCAAGAAGAACAAGCCAGGTGTCTATGCCCGTGTCACAAAGTTCATAGACTGGATCAATGAAAAGATGCGCACAGCATAGGAGGGATACTCTAAAGTGAAAATGAACCAATAGCTCAAATTTTCAATTATTAGAAAAATCATTTTGGTCCAAATTTGCAGTTGTGTAAACAAAAGTATGACATCAGTAGAGGGTTAAATGTCTGTCTTTTAGAACAGGTCATATTCAGACCTTTATGCAAAAAAAAAAAAAAAAAAACGGGTGATCTTGGGACTTTTTTATGTGCCAGTCAAAAACTAATTCTTGTGATTCCTGTACATGTTAAGATTAAGATAAGTTAACTAATACATATTTGCATTACAATGCCTCCTTGAAATGTAGTTTCTTGTTTACATGTTAGTGTTTGCTTAGTTTAAATGGGTGTTTATGTAATAGAATGAATTAAGTTCAAACTGTACTGTATAGCTACTCAAAAGGTTTGAGAAAACCAATTATGGCATCTTAAGCCCTTTACCACAATTGGTTTCCTCAAACTAAGAGTAGCTATACAGCGGTTTGAACTTAATTTGTTCAAGTTAACAGAAATCATTCATTTGAAATAAAATATTTAGTTAATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057498:ENSDART00000122379:12
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:
PF0008921=Trypsin=FE(20.3=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.0=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCGTTAGTACTCAGCTGCTG
R:
CCTGGCTTGTTCTTCTTGCCA
Band lengths:
242-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]