Special

GgaINT0059810 @ galGal4

Intron Retention

Gene
Description
low-density lipoprotein receptor-related protein 5 precursor [Source:RefSeq peptide;Acc:NP_001012915]
Coordinates
chr5:15803007-15805531:+
Coord C1 exon
chr5:15803007-15803330
Coord A exon
chr5:15803331-15805324
Coord C2 exon
chr5:15805325-15805531
Length
1994 bp
Sequences
Splice sites
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
3' ss Seq
TCTGTTTTGTCTTGTTCCAGCTC
3' ss Score
10.23
Exon sequences
Seq C1 exon
GACAGGAACGAGAAATCATAGCAGATGATCTACCTCATCCATTTGGATTGACCCAGTACAGTGACTACATCTACTGGACAGACTGGAATCTTCACAGTATAGAAAGAGCAGACAAGACCAGTGGGAAGAACAGGACACTTATTCAGGGCCATCTGGATTTTGTGATGGATATATTGGTCTTCCATTCTTCACGTCAGGATGGCTTGAATGATTGTGTGCAAAATAATGGTCATTGTGGTCACCTGTGCCTTGCCATACCAAATGGATTTAGATGTGGCTGTGCTGCTCACTATACCTTGGATCCCAACAGCAGGAACTGCAGTT
Seq A exon
GTAAGTTTTTTTTGTTTGCTACAGTGTTCTTCATTGCTTCTGGTTGCCAGGTGCTTGTGATCACTTTCAGCATAGAACGCACTAGGCAGCTCAGCAGCACCCAGATACTTGCTCACTAACCCACAGCACAGGGGAATAGGATCAGTCAGAAAAGGTGCATGTGAGAAAATTCTAGTTAAATGGGAAGACAGACTCCATAACTCCAGATGCTTCTCACTTCTTCCTCCTTTCCCCACTTTTTTTGCTGAGCATGACATCGTATGGGGTGGTACATCCCTTTGGTCTGTTTAGGTCAGCTGTCCTTGCAGTGTCCCTACCCAGCGTTTTGTGCAGCCCTGCCTGATGGGCTGTGGTGGGGCAACGTGAGCAGCAGAAAAGGCCTCGAGGCTGTGTAAGCACTGCTCACCAGTGACTAAATTGTAGGTGTGTTATCAACACTGTTCTGATCAGAAATCCAAAACATAGGACTGCACGAGCTGTTATGAGGAAAATTGTCTCAGTCGAAACCAGTACAGTCTCCACCCCTTATTCCATACACTGTCATGCTCAGGTCCTGTGCTATCCAATACATTCTCATTAACCACAACCTCCATTCTCATCCTTTGATTCTCATACACAGATATTATTCCCTTAGTCTGTAACTCCCTTAACCTGTTCTGCACAGCCTTACCCATGGGCTGTGGTCCTTTCAGGGGCATATTTGCTGTATCATGGCCTTATCTGTGGTTACAGATGCTATGGGATATACCTGCTTCAGACTTATCCATGTGCAGAAATGCTTTGGGTGCACGATTCTGTGATTCCCATGTAGGCTTATCCACAGGTCACAGTCCCTCTGACTTGAATTCATGCTGTAATTCCAGTCTGCCCAGTACAGCAGCGATGCAACAGCAGTAGTTCCCTGGCCATCTGCCAGCCCGGGCTCATGTCCATAGCTATTATCAAACTGTTTCCAGGCGCAGTAGAGTAAGATGATAAGGAGTGCAGCAAACAACAAAAATGCAAGCGGCAGCCGCTAACGAGTGCTCCCAATACACAGTAAGCAAGCAAGTTCTGGGGCATGAACAGGGCCTGCCAGTTAGTAGGTGAACAATCATAAATATAGTCTAACACACTCCAGTCAAATCTGCTATTATCTCAAACTCTTCATGCTTCATTCTGGGTGCCAGGAAGGACAGTTGTAGGTTAAATCTGGTAGGCAGCTGAGCACAATGCAGCTGCTCACTCATTCCCCATTCCTTGGGGTGTCAACAAGAGTTGTACTTCAGCACCAACCACTTCCAAAGGAGCTCAAACTCCTTTATACACTGCCGATATCTCTTATTTGGAGTACAACAGGCCTCGCATTCTCTGTAACCCCAACTCCAAAAGCTTGGGGGTTGACCTGAAGTCTCTCCTGCTGCTTTCTTCCAGGAACTCCAAGTGGGGCCATTCTCACCGGCTGCTGTGTAGAACGCATTTTTTTTTATATCTCATGCTGCTTGGCTGGCCAAAGGGACACTGTATGAACTATCTCCCTTTTAATTTATTCAGGGGCTTGTTGTTGCTCTGGGCCCCATTTGAAATTGTACTTTCAGGACACTTGGTATGAGAGGGTTTACAATCAGACTGATTTGGAATATGCATTCTCCAAAAATCCACAGTGCAAAAGAAAGCTTGTGTTTCCTTTTTGCTAGTTGGTGGAGACATCACTGTTATTTCACTGATCACAACCATAGGGATCTGACAACTTTGGTTTTGCTGTTTTATTCCTAGAAACTGGGTCTCCTGTGCAGGTCCCTTGATCTTACTTTGTTTCATGTCAAAACTGACTTTCAAGAGAATTTGGACTATTTTCTTCCTTTTCTCAAAAGCTTATTTAGTTTTCAATGTGAATATGGTTGTCCATTTGAGATTTTATCCTAAGTGTTCTTTGTCTTTTGTGTGTTGGTTTCTAACAGTATGTTTGACCACGAGTCACATTTTCTTATGCCTTCTGTTTTGTCTTGTTCCAG
Seq C2 exon
CTCCTACCAGTTTCCTGTTGTTTAGCCAGAAATCTGCCATCAGCCGAATGATACCTGATGATCAGCAGAGTCCAGATATCATCCTGCCTATGCATGGTCTAAGGAATGTGAAGGCTATTGATTATGATCCCTTAGATAAATTGATTTACTGGGTAGATGGGCGTCAGAATATTATAAAAAGAGCCAAAGATGATGGCACTCAGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006998:ENSGALT00000011330:11
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=0.097
Domain overlap (PFAM):

C1:
PF0005812=Ldl_recept_b=PD(45.9=15.6),PF0005812=Ldl_recept_b=WD(100=37.6),PF146701=FXa_inhibition=WD(100=33.0)
A:
NA
C2:
NO


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:
CAGGGCCATCTGGATTTTGTGA
R:
CTGACGCCCATCTACCCAGTA
Band lengths:
348-2342
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]