Special

GgaINT0059817 @ galGal4

Intron Retention

Gene
Description
low-density lipoprotein receptor-related protein 5 precursor [Source:RefSeq peptide;Acc:NP_001012915]
Coordinates
chr5:15814761-15815791:+
Coord C1 exon
chr5:15814761-15814997
Coord A exon
chr5:15814998-15815680
Coord C2 exon
chr5:15815681-15815791
Length
683 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGA
5' ss Score
4.74
3' ss Seq
GTTTCTTTGTTTCTGTGCAGCAA
3' ss Score
9.34
Exon sequences
Seq C1 exon
AACCTCCAACTTGTTCCCCAGACCAGTTTACCTGTGCAACTGGAGAGATTGACTGTATCCCAATGGCATGGCGGTGTGATGGATTCCCAGAGTGTGATGACCAGAGCGACGAGGACAGTTGCCCAATATGCTCCGCATCTCAGTTCCAGTGTGAGAAAGGACAATGTATTGACGCGCATCTGAGGTGTAATGGAGAAATTGACTGCCAAGATAAATCTGATGAAGTGGATTGTGATA
Seq A exon
GTAAGAATCATTTTCCTTTTCTCTTGGCTCTGACGTAAGCAGCTATTTGAGATTCTAGCTGTTTTGATACACATTCATGATTTTTAGTTTCAAGTGGGGAAGAACAGTCTTAGCTTGCAAGTCTGGCAGAACTGTCCACTTGATTCTGCTTTTTTCTACGAAGTGAACTTTCCAGGGCTGCTGATTACTAGCCCTGATAAGACAATCTCTTTTCCAATAATTTAATATAGTTTGAATTCACATAGAATCTGAAATCAGTTAACAAATTCATTTTACTGAAACTGGAGCTTGTGGATATAGATAAGAAACATAACAGCTGTATAAGACTTGATTATATTTTCAGTTACCATGTGTTTTAACATGTCAGGTGATCAGTTCACTTCTTTAGTTAGTGTAAAAGATCCTTTCTGATTTGATTTCAGTTTTGCCCCAACTGGACAAAAATGTGGTGTTTCAGAATTTTATATCAGTCTCACTAAGTAGGATGTGTGATGGTACGAGGGAGGAATGAGAAAAGTGCTGACTGAATTTTACCTACTGCAGCAAAACAGGTGTTCTGGTGCCTACCTGTTTATAATATAAAATGCTTTATGGCTTGACGTATCTGACATCTTTTGCTTCTCTTAAGATTGTTGAATGTTCCCATGCAAGTCATACTTAATCGTTTCTTTGTTTCTGTGCAG
Seq C2 exon
CAATTTGTCTGCTCAATCAGTTCCGATGTGCCAGTGGCCAGTGCATCCTCCTGAAGCAACAGTGTGACTCCTTTCCAGACTGCATTGATGGCTCAGATGAACTCATGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006998:ENSGALT00000011330:18
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:
PF0005713=Ldl_recept_a=WD(100=48.8),PF0005713=Ldl_recept_a=WD(100=46.2),PF0005713=Ldl_recept_a=PU(0.1=0.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=97.4)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCCAACTTGTTCCCCAGA
R:
GCACATGAGTTCATCTGAGCCA
Band lengths:
346-1029
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]