GgaINT0071396 @ galGal3
Intron Retention
Description
NA
Coordinates
chr4:51057233-51057902:+
Coord C1 exon
chr4:51057233-51057416
Coord A exon
chr4:51057417-51057700
Coord C2 exon
chr4:51057701-51057902
Length
284 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
AGCACTCCTCTTCCTGCCAGGAT
3' ss Score
7.51
Exon sequences
Seq C1 exon
GTGTGAGATCAGACTGTATCGCTGTGGACTGGATTGGGAGGAACCTGTACTGGACGGACGGGGTGGCAGGGCAGGTGCTGGCCACTTCTCTGGAGACCACCTGGCGAGGGAAACCAGAGTACACCATGGTGCTGGATGGAGACTTGGACCAGCCACATTCCCTGGTGCTCCAGCCTCTGGCTGG
Seq A exon
GTAAGGCTGGGGCCAGAGGGCTTGGGGATCTTGTTGCCTAGCCCATTTTCCCCCATAGAAGCAGACAACAGGCTGGGGGAGAGTTGGGTTGGGCTCATCTGGGTGCTGTTTCAGATGTATGACTGGGGAAGAAGGAGCCCAAGCATCTGCTCCTGCCCTACGCAGAGCTCTCAGTACATCCCTGATGGGATGGGAAACCCTGTGCTACCCCTCTGTGCTGCCCTGTTACTGCCCTGGTACTGGGCTGTGCCAGGTCTGTGGGCCAGCACTCCTCTTCCTGCCAG
Seq C2 exon
GATGCTATACTGGTCAGAGGTGGGGAACCAGCCACGGCTGATGGAGGCCACCATGGATGGAAGGCGGCAGCGTGTGCTGCTGGCGCAGGGCCTGGGCTGGCCCACAGCACTAGCCCTTGACCTCCCCACCTCGAGGCTCTTCTGGCTGGATGAAAAGCTGGGCAGTGTTGGTTCCACACATCTGGATGGCACCGATGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023172:ENSGALT00000037928:14
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=0.015
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=61.8),PF0005812=Ldl_recept_b=PU(53.5=33.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGAACCTGTACTGGACGGA
R:
TTCATCCAGCCAGAAGAGCCT
Band lengths:
301-585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]