GgaINT1007559 @ galGal4
Intron Retention
Gene
ENSGALG00000028659 | Blec1
Description
C-type lectin domain family 2 member E [Source:RefSeq peptide;Acc:NP_998747]
Coordinates
chr16:104372-104918:-
Coord C1 exon
chr16:104812-104918
Coord A exon
chr16:104514-104811
Coord C2 exon
chr16:104372-104513
Length
298 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
CCGTCTGTCTGTCCATCCAGGTT
3' ss Score
10.93
Exon sequences
Seq C1 exon
AGCTTCACAATGAGACACAAAGGCAGCTCCCCCCACTGGGTTGGCCTCTCCCGGGAAGGCAAAGAGCATCCATGGGAATGGGTGAACCGCTCTCCTTTGTCTCACCT
Seq A exon
GTGAGTTCCCATCCTTGTCTTGGAGGCTGCAGCTTCTCCAGCCCCAAAATGTGGATTTCTGGGCCTCGGGAGCATTTCTGGAGGTGGTTTATGGGGTGAGGAGATGTGGGGAAGGCGCTTCGCACCGCTTTGGGTCATAGAAGTTCATTGAGCGGCAGAAGTGGCGCAGGAAAAAGAGATTCCTATTTAATTAATTATTTTGTCTGTTTGATTTCACCACTGTGATTTCCTCCTTCCCCCCCCCCCCCCCCCCCCCCCACAACCTGGGGTCTGCCTGTCCGTCTGTCTGTCCATCCAG
Seq C2 exon
GTTCCAGGTGCAAGGTGATGGTCTCTGTGCATACCTGGGGGATGCCGGGCTCAGCTCCTCCCACTGCAGCGCGCGGAGGAATTGGGTTTGCACCAAACCCGCGTTGCAAAAACCGAGGAAGAACTTCTGCATCAGCACCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028659:ENSGALT00000000183:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=FE(36.5=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(33.3=66.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
AGCTTCACAATGAGACACAAAGG
R:
TGCTGATGCAGAAGTTCTTCCT
Band lengths:
244-542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]