GgaINT1007558 @ galGal4
Intron Retention
Gene
ENSGALG00000028659 | Blec1
Description
C-type lectin domain family 2 member E [Source:RefSeq peptide;Acc:NP_998747]
Coordinates
chr16:104812-105427:-
Coord C1 exon
chr16:105255-105427
Coord A exon
chr16:104919-105254
Coord C2 exon
chr16:104812-104918
Length
336 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
TTCCCTCTCCTCTTTTCCAGAGC
3' ss Score
11.99
Exon sequences
Seq C1 exon
TGCAGGCATTCCAGCCCCATCCCCAGCCCTGTGCTCAGTGTCCCTTCGACTGGATTGGATTCAGAGGAAAATGCTACTACTTTTCAGAGGATGAGAGCAATTGGACGAGCAGCCAGAACAACTGCTCTGCACTTGGTGCTTCCTTGGCTGTGTTTGACAGCGCTGAGGACTTG
Seq A exon
GTGAGGGGGACACAAAAGAGCCACCAATGTATTTTGTCCGCTTGAGGGCCCCTTGGCTGCTCTTTCAGTGTTTCCTTTCTGATTTTGGGGTGAGGAGGTGGATAATGGTTGTCCTGAGGGTAGGTTGGGTCTACTCCTCAAAATTCTTCAAGGGATTTAAGGGAAAAAAAAGATGTTTTTTCTATGAAGTAACCACGCTGGCTTAGAGACTGTGAGCTTTGGTGATGGATTGGGCAGTTTCAAGCACTGAGATTATTGGTTGAAAGGGTTCTGCAGGCAGTGGCATGCAGGAAGTGTCCCAGAGCCCCATGATCTGTTCCCTCTCCTCTTTTCCAG
Seq C2 exon
AGCTTCACAATGAGACACAAAGGCAGCTCCCCCCACTGGGTTGGCCTCTCCCGGGAAGGCAAAGAGCATCCATGGGAATGGGTGAACCGCTCTCCTTTGTCTCACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028659:ENSGALT00000000183:3
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=0.028
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=PU(28.1=46.6)
A:
NA
C2:
PF0005916=Lectin_C=FE(36.5=100)
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:
ATTCCAGCCCCATCCCCAG
R:
GTGAGACAAAGGAGAGCGGTT
Band lengths:
271-607
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]