GgaINT0128791 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:4551059-4551847:+
Coord C1 exon
chr18:4551059-4551097
Coord A exon
chr18:4551098-4551685
Coord C2 exon
chr18:4551686-4551847
Length
588 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
CACCTTTCTCTCCCCTGCAGAAA
3' ss Score
12.53
Exon sequences
Seq C1 exon
GATGTGACAGATCTGAAGAGCCAATACAAGGACTTGCTG
Seq A exon
GTAAGGTTCTTGGTTTTCCGGACAGATTGGGATCTCACAGCAGAGTAATTTCTTTCCCGATGGGCAGGAAATGCCCAGGTCAGGGCAGGAACTTCCTCTGGGGTTGCACAGTGGAGTCACGTCCCTCATTTTCTTGGGTGCAAATTGAGGGCTGTGGGTGAAGGTTGCACCTCTTTATGGGCCGTTGGTCTGGAGCTGCAGCAGGAAACCCCATCCCACAGAACATCCTATGGGATTGCAAATGCTGAGGCTTGCCCTGATCGCTAACAAGGACTGTGGAGAGGAGATGGGCATCTGGAGCAAAGGAAGTGACCCAACACCCTGGGCTTGGCCTGCTGGGTCCATAGGGTTTGATGTTGAGGAATGCCATTGTGAGAAACATAGCAGAGCTGGGACTGCTTTCAGACTGCCTGGGGCATCATCCCACACCTGGAACTCTGGTTAGACAAACTCATCCTGTTTGTGAGAGAGGGAAAGGCCCCATCAGATAAGAACGAGCAGAGATGTCTCACTGAGGTCTCTGGGATTCTGGTGGATGTGTAGCGTGAGGGGCCCTGGGAAGCACCAACACCTTTCTCTCCCCTGCAG
Seq C2 exon
AAAGCTTCCATCTGGCGAGGGCAGAGTCTGGGCAGCCTGTACCACCACCTGCAGGGCTGCACCAAGGAGCTGGGCTACCTGACGGAGCGGCAGACCTGCATCCTGAAGCAGGACTGGAGTGACCAGATGACAGACGTGCAGAGCGTGCGGCGGGAGTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002108:ENSGALT00000003290:5
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:
PF0043516=Spectrin=FE(15.8=100)
A:
NA
C2:
PF0043516=Spectrin=PD(13.2=18.5),PF0043516=Spectrin=PU(40.0=77.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGACAGATCTGAAGAGCCA
R:
CTCGTACTCCCGCCGCAC
Band lengths:
199-787
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]