GgaINT0044460 @ galGal4
Intron Retention
Gene
ENSGALG00000008905 | HABP2
Description
hyaluronan-binding protein 2 preproprotein [Source:RefSeq peptide;Acc:NP_001264308]
Coordinates
chr6:26981903-26983018:+
Coord C1 exon
chr6:26981903-26982037
Coord A exon
chr6:26982038-26982907
Coord C2 exon
chr6:26982908-26983018
Length
870 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTC
5' ss Score
3.68
3' ss Seq
GTTCTCTGTCCCTACCGTAGAAG
3' ss Score
7.93
Exon sequences
Seq C1 exon
ATGAGGCTGATGACTATGAGTACGAGTACTATGATGAATACGTGCAAGTGGAAGAGAAACTATCCCAAGAGATTCTGCTCTTGGGGGAACCTGACTGGGTCGACCCATCCCCTCTCTACAGAAGAATCCAGCAAG
Seq A exon
GTGCTCCTGGGGGCGGGCGGGGGGCGAGGAAGGGGTGAAATCCCAGCCCCAGTATGCAGTGCGTGGCAGGGCTCGGCTGCCAGCCTGCCTGCAGAACGCCTGCTTCAAAGGGATGAGTGGGGAGGGTTGTTTGCTGTGTTCTCTTTTGTGTTTCTCTTGTAAGGAGCCTGTGTTTTATCTCTAGGTTTCACAGGGTGGATTCTGATCATGCAGAACATTTCTGATTGCTACTACAAAAAAAACGCAGGCTTATTTGTCTATAGACACTGTAAGATGTAATTGCTGTTTTCATGGGATGTACGTTCTGTATTTGTGCTGGGAACCAAATGCAGAGCAGGTTTCTTTCTTTTTTTTTTTTTTTTCCTTTTCTTTTTCTATTTTACTGGACTTTAGGAGAGCAGGAAAGGATGCCTAGGGCTTCTGTGGGAACACAAGGGGAGAGGTGGGACTGCAGCAGCCCTTCTCCTCTGGATGGCTTTTCCATGGGAGTTTTAGTGCTAGCTTGCAACCAGGGCAATACCAGGTCCTGGCAACTCCACACCAATGGCATGGAGGCAGGTGCCCAGGGCAAGCTCTGGTTCTTAATGGATATGCTTCTACTACAGAGGTAAATGTGCTCCATCACAGGCTTGTAAAGGGAGCTGGGGATCCCTGGGCTTAGAGCATACAGCATACAGGAGGCTCCACAGCAATCCATAGCTGCTCCTGCCGCTGCTGGGCCAGCCATCAGCACAGCATGTGTTACAGTGGATGCTTGCCCAACCTTCTGCACAGCCCTATGGTGGTACCTGGCACACAAAAAGAGCACACAAGAAAAAATGCTGGCGAGAAGCTGAAGGCAAAACTAAAAGTTCTCTGTCCCTACCGTAG
Seq C2 exon
AAGATCTGTGCTCCTCCAACCCCTGCAAGAACAACGGCTGGTGTGAGATGAGAGGAAGCAATTTCACCTGCCTCTGCCCCAGGCCCTATACCGGGGACACCTGTGGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008905:ENSGALT00000033102:3
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:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=81.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAGGCTGATGACTATGAGTACGA
R:
CTTCCCCACAGGTGTCCCC
Band lengths:
246-1116
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]