DreINT0088929 @ danRer10
Intron Retention
Gene
ENSDARG00000037805 | lgals3bpa
Description
lectin, galactoside-binding, soluble, 3 binding protein a [Source:ZFIN;Acc:ZDB-GENE-060331-57]
Coordinates
chr3:57634036-57635261:-
Coord C1 exon
chr3:57635130-57635261
Coord A exon
chr3:57634298-57635129
Coord C2 exon
chr3:57634036-57634297
Length
832 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CCATTTTGTTTACTTTTCAGGTA
3' ss Score
10.57
Exon sequences
Seq C1 exon
GGTCTGGTCCAATCTGGCTGGATGATATGAACTGTAAAGGCTCAGAGAGCATATTGTCTGAATGCTGCTTTAAAGGCTGGGGTGTCAATGACTGCACACATCAAGAGGACGCTGGAGTGGTTTGTGACACTG
Seq A exon
GTAAGACACCTACTGGATCATAAAGAAATCGCATGCTTTTTTTGTAAGAAAGGGTTAAGCCTAGTGGTACTGTTTTCTGGCTGTATTTGTTAGTAATTTGCAATATTTATTTAAGCACTAGCCTATGCCATATTTCTCAGTTAAAGAAAATTGAATAAGTGTGCCCCATCCATGGCTAAATCATATCTGTCTTCCACTAGTGGGCGCTGTTACATGCAAATTTATAAGAATTCACAATAATGAATCTTCATGAAATCCATGTTCATCTATAGACACATCAACGTTTCAAATCTTCTGAGAAGTCTAATATTTCATAGCATTAACAGATTCCCTTTTATCCAATGTCACATATTTCTTCCCACAGAATTATTCCAGCATATTTGTTATTAAAATACCACTTTCTGTAGCCATTACCTTTTTCTAATCTTTCATCCCAGGCACAGTCTCAATTATTAAATGTATAGCATCAGCAATGTGGCTGCTCTCTGGTTTGTCCGCCTATTGGATACCTACAGCACAATGCACCTCCATCTGCCCTGCTACTGCACACCTGACATACACTAGCTCCTCTTTCAAAACAGCAATCTGTTGAATCGGCAGTCATTACTCTCGGTTTTTCTCTTTCTGCCTCATCAATGTAATAAACAAACTGATTAGCTCTATTGGAGTTTCTATAAGTACTTCCAACTTTCAGGCCCTTTTTTCTCGTCCATAGAGCAAATGCAAACTGACTAATGTTAGCGTAACCTAGGTTTTACACAACTAAACAAAAATTCTTCAATAATTTCTCTCACATCCACATGTTTTTTGATCCATTTTGTTTACTTTTCAG
Seq C2 exon
GTACAAACGCAACCAACATCCGTCAGATCTCTGTGGATAACAGTCTGGGATTGTCAGATGATCTCGGTTTCCTGTTTGACAGTGAAGACGGTTGTGATTTCATCATTGCTGTACAAGATCTTAGTGAAGAAGCTGAATTGACTCTTTGTGTGCACCGTGTGATCCTCATGATGTATCCCGAGCTAAACATAACAAATGACACCAGAAACCTTACAGTTGATGTCAGCCAGACTTGTCAGTCCCATGTCTCTGCTTTGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037805:ENSDART00000055088:3
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=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(43.3=93.3)
A:
NA
C2:
PF0065126=BTB=PU(62.3=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTCCAATCTGGCTGGATGA
R:
TGGCTGACATCAACTGTAAGGT
Band lengths:
357-1189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]