GgaINT0005592 @ galGal3
Intron Retention
Gene
ENSGALG00000005824 | SUSD2
Description
NA
Coordinates
chr15:8078489-8079205:-
Coord C1 exon
chr15:8078937-8079205
Coord A exon
chr15:8078633-8078936
Coord C2 exon
chr15:8078489-8078632
Length
304 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GTTTTTGCTTTCCAAAATAGCAT
3' ss Score
6.88
Exon sequences
Seq C1 exon
CCCCCAGTACGGAGCAGGACAGCAGTGCTGCTACGACTCCACAGGGACCCAAATCCTCACACAAGACTCCACAGGAGGCAGCACACCTGATCGAGGCCACGACTGGGGGGCACCACCCTTCCTGAAGCCTCCCCGGATACCTGCCTTTTCCCATTGGCTTTATGATGTTATCAGCTTCTATTACTGTTGCCTGTGGTCTGATAATTGTCACTTCTATATGAAAAATCGCCCCTCTAGTGACTGCAGGACGTATCGCCCACCCCGAGCTG
Seq A exon
GTAAGAGCTCCAGAATTCCATTTTGGAGTAGACTTTCCATACAGGTTTGGCCTTTAGGATGTCTGTGTATGTATTAATGCCAGTTGGCAGTGCTGGGGACACAATATCCTGTAGAAAATTTCCATGGCAGGATTCAACTGATCTGTCAGTAGCAAAACGTGTTTTTTAACTGCCCTACAAAACTGGCTTGAGCATCTTATCAGTTCCTGGAATCTAAATAGATGACATTTAGCTAGAGGCTTTGGCTTCCTAATGGGTTGAGGGCTTTTCTTGCTCTTATTTCTGTTTTTGCTTTCCAAAATAG
Seq C2 exon
CATCTGCTTTTGGGGATCCTCACTTCCTCACATTTGATGGTCTGAACTTCACTTTCAAAGGACAAGGGGAATACACATTGGTAGAGTCTGATCTCACATCCCTAAGGGTGCAAGGGAGGACCCAGCAAGCACGCTTTCCCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005824:ENSGALT00000009356:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.198 A=NA C2=0.061
Domain overlap (PFAM):
C1:
PF0378212=AMOP=PD(52.1=83.5),PF065357=RGM_N=PU(31.8=30.8),PF0009420=VWD=PU(0.1=0.0)
A:
NA
C2:
PF065357=RGM_N=FE(54.5=100),PF0009420=VWD=PU(28.9=98.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGACCCAAATCCTCACACA
R:
TCCTCCCTTGCACCCTTAGG
Band lengths:
347-651
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]