GgaINT0036828 @ galGal3
Intron Retention
Description
NA
Coordinates
chr8:6398806-6399495:+
Coord C1 exon
chr8:6398806-6398932
Coord A exon
chr8:6398933-6399281
Coord C2 exon
chr8:6399282-6399495
Length
349 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
CCTGGGGTCTGCTTGTGGAGGTG
3' ss Score
-2.24
Exon sequences
Seq C1 exon
GTATCAGTGCCTCCTATGCAATGTGTGTACGGTACGACGGAGTGGAAGTGGACGAAGCATACTGCGATGCCCTGACCCGACCAGAACCTACACATGAGTTTTGCACAGGCAGAGACTGCCAGCCTAG
Seq A exon
GTGAGTGGAAATGGCATCTGCTCCCCCTGGGGGATACAAGTCTTTGTAAGGATTGTTTCCTGCTCACGGTATGCAGCCATTTGTGGTCTGGAAGACATATTTAAACAGCTAAACCTGCATATCCTCACGTAAATGAGAAGAGGGAAGGAATTTTCTGTGTCTAAATTACCTGCTGAGCACGAAGTTGCTTTGCAAGACCACAGACCTACCCCTGATGAGCAGATTCACAGCAGCAGTTGGCGGGTCAGGGAGTCTTAAGGCACGCGAACGCTCCCCAGCCACCCTCCATCCCCGGGTCCCTTACCTGGGTTTTGCTTTGTGTTTCCTCTCCTGGGGTCTGCTTGTGGAG
Seq C2 exon
GTGGGAAACAAGCCGGTGGAGTGAGTGCTCCAGGACCTGTGGCGAGGGCTACCAGTACCGCACCGTGCGCTGCTGGAAGATGCTGGCTCCAGGCTTCGACAGCTCTGTTTACGATGACCTCTGCGAGTCGGCTGGGCTGGCCAGGCCCATAGAGAGGAAAGCCTGCAAGAACAAGGCCTGCGGACCCCAGTGGGAGCTCTCGGAGTGGTCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004032:ENSGALT00000006421:14
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:
NO
A:
NA
C2:
PF0009014=TSP_1=WD(100=83.3),PF0009014=TSP_1=PU(14.3=9.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCTCCTATGCAATGTGTGT
R:
CTCAGACCACTCCGAGAGCTC
Band lengths:
334-683
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]