GgaINT0129710 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:2125450-2126786:+
Coord C1 exon
chr18:2125450-2126417
Coord A exon
chr18:2126418-2126627
Coord C2 exon
chr18:2126628-2126786
Length
210 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CACGCTCCTCCCTCTCACAGGCA
3' ss Score
11.69
Exon sequences
Seq C1 exon
CTCCTTGCACGGGCGGGTGGGCCGTTCATGGACTGGGACCAGACGGCAGAGGTGGAGCAGCAGGCAGATCCGCCCGAGGACACGCTCAGCCGGCCCCCCAAGGAGCTGAAGAAGCTGGCAAGGGAGGGCTGCTGGGCCGCCAGCCGCACGCTGAGGGCTGCAGCTTACCAGCGGCTGTGCCAGCGTGTCGCCTGCCGCCTCTTCACACCCGATGCCCTGGTGTATGGGGATGTGGCCACGAGGCTCTTTGGAAAGCACGGCGCCAGCTCCCACCCGCTGCCCGACAACCTTGGGGGGTGCTACCTCACCCGGTACTGCTTCAACCTGCACGGGGTCGCGGCGCTGAAGAAGATCCTCATCTGCATTGGCAACCTGTTCCCTGACATCGCCTACAGCCCCGCGCTGCCCTCGCTGGTGACTCTGCTCCTCCACTACAGTGAGGATGAGGCTCAGTTCTTCGAGAACATCTCCCGCCTCATCGCCAGCAATGCCCCTCACACCAGCTACATCGACCAGTCCTTCCTGGCCCACCAGGCCTCCTGCATGACGTTCGGGGACCTGGCCAACAAGCACTGCCCAGCGGCGCACAAGCTGATAGCCAGCACGTCTGAGAACGTCTTTGAGGTGTACTCCGAGTGGCTGTGGTGGCTCTTCCGCGACCTCCCCTTCAGCTACGCCATCCGTGTGTTTGACGTCTTCCTGCTGGAGGGGCAGAAGGTGCTGTACCGCATCGCCCTGGCTCTGCTGAAGCAGTACCGGCTGTCGGTGAGCTCTGCCCAGCAGGAGGGGTCTGACACCAAGGCAGAACTGCAGGCCTTTGTGCAGAACATTGCCCAGCACGTCACTGTTGATAAACTCCTGGAGAGAGCGTTTGGCATCCGGCTGTTCTCCCGCAAGGAAATCTGGCTGCTGCAGATGGCCAACAGGAAGGCACTGATGGAGAGGGGGATCACCATGGTGCAGGGCAG
Seq A exon
GTAGGAAGCTGGCCCGTTTGCCCTCAGTGCCGACAGTGCTCTTGGGGCAAAGTGGGCAGACAATGGGTTCCAGTGGAGATGCAGCACGGGGGGAGCTCCAGTGTGTCCCTAGGCTGTGGCTATGCTGCACAGACACTGTCGGGATCATGGCACATAACAGCACATTAGGGGTACTCCAGCTGAGCGCTGACACGCTCCTCCCTCTCACAG
Seq C2 exon
GCAGTCCTTCCACCTGGCCGTGGACATGCAGAGCTTCAGCTCCAGCATTGTATCAGCTCAGGAGATGCGCATCATCTGGTCCTGGATCCCCGAGCGCTTCTCCCTCTTCCCCCCACTGCTGCTCTTCTCCACCTCAGAAGATGGGTGCAGCCTGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001244:ENSGALT00000039321:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0056613=RabGAP-TBC=WD(100=47.4)
A:
NA
C2:
PF0753411=TLD=PU(13.8=24.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTTTGTGCAGAACATTGCC
R:
CTGCACCCATCTTCTGAGGTG
Band lengths:
305-515
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]