GgaINT0123811 @ galGal3
Intron Retention
Gene
ENSGALG00000004986 | CERCAM
Description
NA
Coordinates
chr17:5564921-5565235:-
Coord C1 exon
chr17:5565129-5565235
Coord A exon
chr17:5565054-5565128
Coord C2 exon
chr17:5564921-5565053
Length
75 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAC
5' ss Score
4.07
3' ss Seq
CCTACCTCCTCTCCTTGCAGCAC
3' ss Score
11.85
Exon sequences
Seq C1 exon
ATCTTCCTCATCAATCTGGTGCGGCGGCCGGACCGGCGCCGGCGGATGCTGGAGTCCCTGCAGGAGCTGGAGATCGCTGCGCGGGTGGTGGATGCAGTGGATGGGAG
Seq A exon
GTGAACGTGTAGTGTCACCCTGGGAGGGAGCTGGGTGCTGGGGACACCGTGCTGACCTACCTCCTCTCCTTGCAG
Seq C2 exon
CACCCTCAACAGCAGCGACATCAAGGTGCTGGGGGTGGACCTGCTGCCGGGGTACTATGACCCCTTCTCTGGCCGCACACTCACCAAGGGGGAGGTCGGATGCTTCCTGAGCCACTACAACATATGGAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004986:ENSGALT00000007990:3
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:
PF0175512=Glyco_transf_25=FE(18.9=100)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(23.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCTCATCAATCTGGTGCGG
R:
GGCCAGAGAAGGGGTCATAGT
Band lengths:
178-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]