GgaINT0058991 @ galGal3
Intron Retention
Gene
ENSGALG00000010258 | LTBP2
Description
NA
Coordinates
chr5:40350021-40351144:-
Coord C1 exon
chr5:40351025-40351144
Coord A exon
chr5:40350141-40351024
Coord C2 exon
chr5:40350021-40350140
Length
884 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAG
5' ss Score
5.73
3' ss Seq
AGGAGTGTGTTTCTTGGCAGATA
3' ss Score
6.6
Exon sequences
Seq C1 exon
ATCGAGATGAATGTGAGCAGCCTTCTACATGTCCGGGACAACGATGTGTCAACACCCCCGGCTCCTACCGTTGCGAGTGCAAGGAGGGCTTTGCCATGGGCCTCCGAGGACAATGTGAAG
Seq A exon
GTGAAGCTTCTGCTGCCTGTCCACCTTGCTATAGGGCTGCTCTTCCTGGAGTGGAGGATGGATCAATCCTTGTTTGCCAGTCCTGTACTTCCCCGATGGCTGCCTGACCTCTCCCCTATCTGCGAGAGGGACAAGCTTTCCTGGGCAGCCAAAGGGGACTTCTCCTGATGTCCTCTCCCACTTTCCTAGGGGCAGCCCCCACAGAGCATTCAGACCAGTCCAGTGCCCACTTCCCATTCTGGAAGGAGATGCCTATGCATTTTAGTGCCTGCTTAACTCTGTGACCAGGCACCTCTGCTGGCCAGTGGTCTGCAAGGACAGCAGGCTACAGAGGCTCAGTCCACCTGTCCCCACACCATCCCTCTCACTTGGCATGACCCGGGCCCGTCAGAGAATTTGACCTCGCGAATACACGTTGTGCCTTATCAAAGATCTCCCTTCCTCAGTAGCTTGTCTCCAACAGAGTTATTGGGAGTATATTTTAGGAATACTGGGGAAACAAGGTATGCACAGAATGCTTTACCCCTGCACGGCCTCCAGAAAGCACACGCCTTAAGGACTTCCTGAACCAGAGGCTGCCTCTTAATCGCAGTTATGAAAGTCTGCTGGCAGAGCAGCCCTGTGCAGATGTTGGCTGAACCCTTTCCGTGCCCATGCACGTTCCTGGCCCTGGCAACCTCCACTGGCAGAAAGGTTTTACTGCTGGATTATGTGAGCCCTCAGGTGTGGGTGTAGGATCCTGAGACATTATGAAAAGCATTGCCTGAGCCCGAGCAAATCCCTCTCACCTCCCCTTGGGCAAACCCTGTCTTGGAGGGGCACTCTGAGGACGAAGCTGCAGGGGGCATCCTAGAGGTGTCCACAAGGAGTGTGTTTCTTGGCAG
Seq C2 exon
ATATCAATGAGTGCGTGGATCCCAGCCCTTGTCCCCATGGGAAGTGTGTCAATACCCCGGGCTCCTACAGGTGTGTCGGCTGTGCGGACGGCTATCAGCCCAGGAACGGAAGATGCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010258:ENSGALT00000016690:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.1),PF062476=Plasmod_Pvs28=PU(18.7=82.9),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF062476=Plasmod_Pvs28=FE(22.0=100),PF0764510=EGF_CA=WD(100=95.1),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGAGATGAATGTGAGCAGCC
R:
GATGCATCTTCCGTTCCTGGG
Band lengths:
238-1122
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]