GgaINT1017186 @ galGal4
Intron Retention
Gene
ENSGALG00000010258 | LTBP2
Description
latent transforming growth factor beta binding protein 2 [Source:HGNC Symbol;Acc:HGNC:6715]
Coordinates
chr5:37220943-37221344:-
Coord C1 exon
chr5:37221225-37221344
Coord A exon
chr5:37221066-37221224
Coord C2 exon
chr5:37220943-37221065
Length
159 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGG
5' ss Score
10.48
3' ss Seq
CCCTTTGCTGTGTAACACAGATG
3' ss Score
7.17
Exon sequences
Seq C1 exon
ATATCAATGAGTGCGTGGATCCCAGCCCTTGTCCCCATGGGAAGTGTGTCAATACCCCGGGCTCCTACAGGTGTGTCGGCTGTGCGGACGGCTATCAGCCCAGGAACGGAAGATGCATCG
Seq A exon
GTAAGGATTTCAGACTGCCTCTGGGAGGCACTCTTACCCTCACAAAGAGCCAGGAGCACACGCAACACGCTTGTCTGGCACAGTGCCCTCCTGACTTGGGTGGTGGGGACAGACCTGAGCATCCTTCCGTGCCATCTTGCCCTTTGCTGTGTAACACAG
Seq C2 exon
ATGTGGACGAGTGCCTGGTGGAGAGAACCTGTGCCCATGGACAGTGTATCAACCTGGATGGCTCTTTCCGATGTTCCTGCTACCGGGGCTATGAGGTGGCACCCGATGGGAAGAGTTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010258:ENSGALT00000016690:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF062476=Plasmod_Pvs28=FE(22.6=100),PF0764510=EGF_CA=WD(100=95.1),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF062476=Plasmod_Pvs28=FE(23.2=100),PF0764510=EGF_CA=WD(100=95.2),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATCAATGAGTGCGTGGATCCC
R:
CTTCACAACTCTTCCCATCGGG
Band lengths:
242-401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]