GgaINT0059000 @ galGal3
Intron Retention
Gene
ENSGALG00000010258 | LTBP2
Description
NA
Coordinates
chr5:40345288-40346317:-
Coord C1 exon
chr5:40346186-40346317
Coord A exon
chr5:40345414-40346185
Coord C2 exon
chr5:40345288-40345413
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:ENSGALT00000016690:27
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=95.6),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
Rat
(rn6)
No conservation detected
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]