GgaINT0039815 @ galGal3
Intron Retention
Gene
ENSGALG00000004775 | GLT25D2
Description
NA
Coordinates
chr8:8050542-8051376:-
Coord C1 exon
chr8:8051249-8051376
Coord A exon
chr8:8050749-8051248
Coord C2 exon
chr8:8050542-8050748
Length
500 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGT
5' ss Score
6.69
3' ss Seq
TGGTCTCTTCACCCTTTCAGCTA
3' ss Score
8.52
Exon sequences
Seq C1 exon
GTAGTGAACAGAGGACTGGAGAAGACGCTCGTTATTGAGGACGATGTGCGCTTTGAACATCAGTTTAAGAGGAAGCTGATGAAGCTGATGGATGACATAGAACAAGCTCAGCTAGACTGGGAGCTTAT
Seq A exon
GTAAGTGGCTGGCCCCAGGCACCTGGGAGCTGCTGGGCACACAGGGGGGAGCAGCATGCTCTGCCATGGCAGAGGTGCAGCTTCATGCCAGACAACATTAAAGTTTCAGACTTCAGTGGGCTCTTCTCACTGGAAGAGATCTGCTCCCCGGGGCAGACTGGAGACACCCAGCTGTAGTGGGGACTGTCAGGCCAATGTAGCTGGGGCAGTGCTGGTTGGTCCCAATGATGTCAGAGATGCTGCTGTGGCAGAGGAGCTGGCACTGCTCAGTCCTGGGGTTGGACTGAGGCATTCAGTGCCCTTGCAGAGCCTTTCACAGCTGTGCCACTGTTGGGTTACGGTATGGCTGTCTAGGAGTGCTGTGGGACAGCGGTCTGGGAGCAGGGATGGCTTTTTGGATTGACTCTCTGCCCTGTCCTGGTGGAAATAAGCAGCTGTGTGGTCTTCATTGCTGCAGATGTGCTTCAGTTCAAGTTTTTGTGGTCTCTTCACCCTTTCAG
Seq C2 exon
CTACATCGGCAGGAAAAGGATGCAGGTACAGCAGCCTGAGAAAGCAGTTCCCAATGTCATGAACCTGGTGGAAGCAGATTACTCGTATTGGACCCTGGGGTATGCAATCTCTTTCCAAGGGGCTCAGAAGCTAATTGGGGCAGAGCCTTTCAGCAAGATGCTGCCTGTGGATGAGTTTCTGCCAGTCATGTACAACAAGCACCCTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004775:ENSGALT00000039353:11
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(22.6=100)
A:
NA
C2:
PF0175512=Glyco_transf_25=PD(32.3=85.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGGACTGGAGAAGACGCTC
R:
ACAGGGTGCTTGTTGTACATGA
Band lengths:
326-826
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]