GgaINT1017201 @ galGal4
Intron Retention
Gene
ENSGALG00000010258 | LTBP2
Description
latent transforming growth factor beta binding protein 2 [Source:HGNC Symbol;Acc:HGNC:6715]
Coordinates
chr5:37213740-37214382:-
Coord C1 exon
chr5:37214107-37214382
Coord A exon
chr5:37213890-37214106
Coord C2 exon
chr5:37213740-37213889
Length
217 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
ACACCCTTGCCGCCCTCCAGGTC
3' ss Score
9.65
Exon sequences
Seq C1 exon
CTGATTTTGCTTTCCTCTGTAATGGAGCCAGTGAAGACAGTGACAGAGGGGCTGAGGTCCGAGAAAGACCTAGGTATGAATACGGACCAGGCTTGGAAGATCCCCACTATGGCCTTCCCAGCCCAGACATGGGCCCCTACTACAACTACCTGGAGTCAGAGTATGGAAACCCTGATGTGGCTTTCCCTCGGAGAGAACTGAGCAGTGAGTTTCGTGGCAGCCCTTTCCACCATGGCCCAGGGCGGCCCCCACCCCGCTACCTGCCCAGCCAACCCG
Seq A exon
GTGAGTACTGGAAGACACAAAGAGATGCTCTCTCACCCAGCCCGTGTCCACCCCAGCTGGGATGCTCCAGGCTTGCAGCAAACTCTCTCCCTAGCTATACTCCTGGATGCTCTCAGTTTTCCCAGCCCCACCCGTACCATCTCACCACGTGCCAGATGTCCTCTCTGTGGTCAGAGAAGCGGTTTTCCCACTCTGACACACCCTTGCCGCCCTCCAG
Seq C2 exon
GTCTTTACGAGGGCTTTGAAGGGCTGCAGGCTGAGGAGTGTGGCATTCTCAATGGCTGTGAGAACGGACGTTGCGTGCGCGTCCCAGAGGGCTACACCTGTGACTGCTTCGATGGCTACCAGCTGGACATGACCCTCATGGCCTGTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010258:ENSGALT00000016690:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.403 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0068312=TB=PD(11.6=5.4)
A:
NA
C2:
PF0000822=EGF=WD(100=58.8),PF062476=Plasmod_Pvs28=PU(38.6=66.7),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGCCAGTGAAGACAGTGA
R:
GAGAATGCCACACTCCTCAGC
Band lengths:
304-521
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]