GgaINT0044466 @ galGal4
Intron Retention
Gene
ENSGALG00000008905 | HABP2
Description
hyaluronan-binding protein 2 preproprotein [Source:RefSeq peptide;Acc:NP_001264308]
Coordinates
chr6:26985548-26986515:+
Coord C1 exon
chr6:26985548-26985767
Coord A exon
chr6:26985768-26986369
Coord C2 exon
chr6:26986370-26986515
Length
602 bp
Sequences
Splice sites
5' ss Seq
CGAGTATGT
5' ss Score
6.61
3' ss Seq
TTACTGTACTCTTTTTGCAGACA
3' ss Score
10.04
Exon sequences
Seq C1 exon
ATGAGGAGAGACAAGAGCAAGAAGATGAAATGTTCAAAACCTGTGGACAACCAGAAAGTCAAAGGGGACTCAGGAGAATCTATGGTGGAACTAAGACTACAGCTGGCAAGCACCCCTGGATGGTATCTCTGCAGAGAAAGTCTTCTAGAAGAGTAACACACTTCTGTGGTGGAGCGCTAATTAAATCATGCTGGGTTCTTACTGCTGCACACTGTGTCGA
Seq A exon
GTATGTGCATGTCCTTTGCTTAGGGCAGATAAATGTATGAAAAACAAGGTTTTACATGAAAATATGCGCATATATTTTAAAAAAACAGCTCTTGCTGGAATTACAAATTAAACTTACACTCCTGTCACCTAAAATGATCTGAAACATGGTTTAGTGGAGAAATATTGGTGGTGGGTGGGCAGTTGGACTAGACGATGTGGTGTTTTCCAACCTTGGTCATTCTGTGATTCACTCATCATCACAGCTGCAAAAAAAGACTATTTGCGCACTGCTGTTCTCCCTCAGAATAAATTTAAAAATTAATGTCAAAGAACTAGGTAAAAAAAAAAAAAAAGCAGCAACAGAAATGTTACTAATGTTGCATGAATGTTTTATTTCATGATTACAACTATTTAAGAGCGCACGTACTGTCCAGCACTGCAGCTTTCCCTTCTAAGCTCTCTTTTTGCTATCTTCGGAAATCTTTCCATCATGCCCTACATCGGGAAACAGTATCTTGACTTCCAGATAGTTAAACTGCAGGTTTTCACCACTGTTACGCAGCATCTGTAACTTCTGCACCACCTCAATGGATAATGTAGTTTACTGTACTCTTTTTGCAG
Seq C2 exon
ACACGGAGCAGAAAATCTCCAAGTGGCCCTGGGAAAGCAAAACCTCAAGAGGAGAGAGCATCAAGAGCAAATATTTGATGTGGAGAAGGTCATCATGCATCACAGATACAGACTGGGTGATGATGATGTCCCATACAATGATATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008905:ENSGALT00000033102:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.243 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.9=63.5)
A:
NA
C2:
PF0008921=Trypsin=FE(20.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGGAGAGACAAGAGCAAGA
R:
TGGGACATCATCATCACCCAGT
Band lengths:
352-954
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]