GgaINT0058985 @ galGal3
Intron Retention
Gene
ENSGALG00000010258 | LTBP2
Description
NA
Coordinates
chr5:40353913-40355200:-
Coord C1 exon
chr5:40355036-40355200
Coord A exon
chr5:40354144-40355035
Coord C2 exon
chr5:40353913-40354143
Length
892 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GATTTAATTTTCCCCTGCAGGAG
3' ss Score
11.04
Exon sequences
Seq C1 exon
CTGACAAAGCAGTGTCGATGGAGCAGGGGCTGTGTTACCGCTCAGCAGCTGGAGGTGTGTGCTCCTTCCCCCTCTCCCACCGAATCACTCAGCAGATCTGCTGCTGCAGCCGCGTCGGCAAGGGCTGGGGCAAGAACTGTGAGGAATGCCCTGTGCCCGGCTCAG
Seq A exon
GTGAGACCAAGAAAGTGCTCTGCTCCAGAGGGAGAGCATAGCCATGTATTTACCTGGCTTTGCTTGGCAGATCTTCTCTCTGACTTGGCTTCCCTCACGTCTTCTGGAATGGGGATGAGTTCAGTATATCTCACGTGAGGTAGGATAGAGGGAAAGTGCAGAAATCCTCAGGGCTGGGGAAAAATAGGATGAGAGAGAATGGCCTCCAGTTGCACCAGGGAAGGCTCAGACTTCTCAGAAAGAGTGGTAATGCATTGGAACAGGCTGCCCAGCGAGGTGGTGGAGTCACCATCCCTGGAGGTTGAAGAAACTTGTAGATGTGGTACTTAGGGTTAGTGGGAGTGGTGGGGATGGGATGATGGTTGGACTAGATGGCCTTAGTGGTCTTTTCCAACTTTAATGACTGAATGATTCAGTGATTCTAACATCTTCAGGTGCTTTGTGTAGAGCATTCTGAGTGACGTGCAGAGTGTTCAGTGCTGGGTGCCAGGGGTCTCTTTTATCTACCCCCTTGCTCAGCTCAGGTCTTCTCATGGCAAGATTCCTCCCTAGAAGCACTGACTCGGGGAGAGATGTAAGTGTTGGTGTGCAGGAGTACCAGCCAGCACCTGCTGAAAAGTCACCCTGCCCTGTGAAGGGATACATTCTGCTTGATGCGTCCATCCACTGCAGCCTAGATGTGTTTCTAGCATTATGTAGCCCTTAGAAACCTCCAGAAAAAGTTAGGATGGGAGAAACTGTTACCTGCATTCACATAGATACCTCTCTGTTTTCACTCCTTTCCTCCACATACCTCCTCATCCTGTCTGGGTGCTATGGGAATGTGTATTTGTGATCCCTGCATGCTTCTCTTTTCCCACTTCCAAAACGTTGATTTAATTTTCCCCTGCAG
Seq C2 exon
GAGCGTTCAAGGAGATTTGCCCAGCAGGACACGGCTATACCTACTCCAGCTCTGACATCCGCCTTTCCATGAGGAAAGCAGAGGCAGAAGAGCTGCCCCTAAGCCTGGAAGAGCACAGTGAGAGCAGCAACTGGACGTTAGACTGGGCAGCAAGGAGACAGCGGCTGCAGGACAGTTTGCATGGGAGTGTCCTGGAGGCATTGCCCCACCCCGACATCTCAGCAGGAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010258:ENSGALT00000016690:12
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=0.128
Domain overlap (PFAM):
C1:
PF0068312=TB=PU(86.0=66.1)
A:
NA
C2:
PF0068312=TB=PD(11.6=6.4)
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:
AAAGCAGTGTCGATGGAGCAG
R:
ACACTCCCATGCAAACTGTCC
Band lengths:
350-1242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]