GgaINT0005590 @ galGal3
Intron Retention
Gene
ENSGALG00000005824 | SUSD2
Description
NA
Coordinates
chr15:8079781-8080972:-
Coord C1 exon
chr15:8080771-8080972
Coord A exon
chr15:8079867-8080770
Coord C2 exon
chr15:8079781-8079866
Length
904 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TGAGCACTGATCTTTTTCAGACA
3' ss Score
6.11
Exon sequences
Seq C1 exon
CAACACTCCATCCATCTGGAGCCCAGCACATGCGTTGGCTTGGCACCTTAGCGAAGACTTCAGAAATAAACCAGCTGCATGGGCAACTGCAAAATGTATAGAATGGGACAGGGAGGAAGAGAAGCTTCCAAACTTCATGGAAGAAATTATAGATTGCCCTTGCACCTTGGCACAGGCAAGAGCTGACACTGGCAGGTTCCAT
Seq A exon
GTAAGTTATTAATCTATCACTCTGGCCTTGTATAGTTCCAAGCAGAAGTTGAGGGACTGCTGTAATCTCCCCCGCAGCCTTGTTCTCTGTTCTATAACCTTCCCTCACACCAAGGTCAGGCTAACAGGCCAAAAAGTTCCTCCTTCCAACCCTTCTTGTAGATGGGTGTCACATTAGCAAGTCTCCAGTTGCCTAGAGTCTCCCCAGTTGACCAGAGCTGCTGACAGATGGTAGAAAGCATCTTAACAATGACCTCCACCAGCTTCCTCAGGTGGATCCCATCCAGCCCCATGGATCTGTGACAGTCCAGGTGGAGTAGGAGGTCACTGTTTCCTCTCTACTTAGTATACCATAACTCACTGCCAACCTTTCTAGCTTATGTTTTGGAGCGCAAATCCACAGCCATAAAACATTATTTCCTATCTCCTGGATTCTTCCTCCCACTCAACTGGTAACAAAGAACTGTCAAAAGCTAAGAAATCAGTTGCCGTGTCATTTACACTTTCAGACAGCACTGACCTGAAGACCAGATGGTGTCACCTCCTCACCTACGTCCAATATAAATGATGGCAGTGTGAAACCTATTGCCTAAGAATAAAGATGGTCAGTATGGCACGTTCTGTGATTGTTACACTTACAGCTGAGTTCTCCATTTAGCTCCATCTGTTCTTCAAGTTCTGTTCTACCAGCCTGCACAAAGCTGAGGTTAGACTAACATGCTGATACCATCACATCAGTACTACATTTACTGTTTCCTCCTGTCGTTCTATGATACCCAACCCACAGCCACAACTACTTCGTTTAGTTTTTACGTGGACCTTAGAGACAAATGGTTGAGAGAGAGCATGAAAACAGGAAGGACAAAATGAAAACTCCCTTAAGCATGAGCACTGATCTTTTTCAG
Seq C2 exon
ACAGATTACGGCTGTGACATTGAAAAGGGAAGTGTGTGTACTTACCACCCTGGCGCTGTGCACTGTGTAAGGGCCATTCAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005824:ENSGALT00000009356:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0378212=AMOP=PU(27.4=58.8)
A:
NA
C2:
PF0378212=AMOP=FE(19.2=100)
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:
CTGGAGCCCAGCACATGC
R:
GGCTTGAATGGCCCTTACACA
Band lengths:
271-1175
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]