GgaINT1017193 @ galGal4
Intron Retention
Gene
ENSGALG00000010258 | LTBP2
Description
latent transforming growth factor beta binding protein 2 [Source:HGNC Symbol;Acc:HGNC:6715]
Coordinates
chr5:37217211-37218240:-
Coord C1 exon
chr5:37218109-37218240
Coord A exon
chr5:37217337-37218108
Coord C2 exon
chr5:37217211-37217336
Length
772 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TGTAATTCCTGCCGCTGCAGACA
3' ss Score
6.18
Exon sequences
Seq C1 exon
ATGTGGACGAATGTAAGGAATATGGGGATGCCATCTGTGGCACGTGGCGGTGCCAGAACAGCCTGGGCTCCTACCGTTGTATCATGGGCTGCCAGCCTGGCTTCCACTGGACACCCCCGGGTGACTGCATTG
Seq A exon
GTGAGTATGGCCTCAGTGTCCCCATCCCCTTCCTGGCAGGAACAACATGGCTGTGGAACATCTTTGCCAGGGTTGTAGAGGAGAAGGAGGAGGAGGAGGAAGCATGTGGCCAGTGGAGAGGCAGATAATGCCGGGAGTTTGTTTTCTTGGCTGAGCTGCCTGCTTGTGTCTAGACATCTCTTCCCGGCATCTGGAACAGACACTGCATTGTGCTGTGTTCCGCTTGGGGAGAGTCCTGGGCAGGTTACAGCCATCCCAGGCTTGGGGCTGGACTGCAGCTCCCAGTGCCTGGCAGCACTGGGTGAAGGGAAAACTGCTGCTATGCTGTACTAGGCACGGCTGGGTTTGGCATTTCAAGCTTCAGTATCAGGCAAAAGGAAAAGTGCAAGGGGAGTTCTGCAGTTTCCCTGTCTCCCCCAGCTCAGGGAAGGCTGCAGCAAGGAGGAGCTGCTTCTGGGCTCAGTGCTCTGCTCAGGACTCTGTGGAGACAGCTCTGGGAGCAGTGGGCTGTGGGCACTGTGCACTGCAGGGAAATCTGCCTGATTCAGCAGCAGCAGGGTTGTGGGCTGCTCATCCTCAGCCCTCTGTGCTTGTGCCGTTGCTCCTGTCCCTCTAACCCTCAGACTCGTAGTCAGGGGATGAGCCATATTCAATCCCTCACATCGAGGTGATGCTTGCCCTGATCCCCAGGCTTTGGGGTCAGAGCAGAAGGGGCTGGGCTGAGGGCATCGACTGGGCTCCAGGGTAATTGCTGTAATTCCTGCCGCTGCAG
Seq C2 exon
ACATAGATGAGTGCGCCAATGAGACGCTGTGTGGGAGCCATGGCTTCTGTGAGAACTCAGATGGCTCCTTCCGCTGCCTCTGTGACCGTGGCTACGAGAGCTCACCCTCTGGGCACTACTGTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010258:ENSGALT00000016690:28
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:
PF0764510=EGF_CA=WD(100=95.6),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.3),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:
TGTGGACGAATGTAAGGAATATGGG
R:
CACAGTAGTGCCCAGAGGGT
Band lengths:
254-1026
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]