GgaINT0004882 @ galGal3
Intron Retention
Gene
ENSGALG00000005298 | ST6GALNAC6
Description
NA
Coordinates
chrUn_random:7558719-7559457:-
Coord C1 exon
chrUn_random:7559275-7559457
Coord A exon
chrUn_random:7559118-7559274
Coord C2 exon
chrUn_random:7558719-7559117
Length
157 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
CATTGTGTCCATCGCCTCAGAGC
3' ss Score
7.44
Exon sequences
Seq C1 exon
CAGAGCCAGCGCGCCGCCGTCTTCGTGCTTCTCTTCGCCCTGCTCATGCTGCTGATCATCTACAGCTCCAGCAGTGGCACCGAGGTGTTCCCCTACAGTGCACTGCGGGGCAGAGCCCGGCGGCCCCCCAACCTGCGGCACTGGGGGGTGAGCAGCGGGTACCTGCCTGTCTCCGGGAACAAG
Seq A exon
GTGGGCACAGGATGTGGGTATGGAGATGGGCTGTCCCCATGGGTGGGACACTGAAAGCCCCTTGGTTTGGACTCCCTATGGTTTGGACTCCCCTCGGTTTGGGGTCCCCGTGTTTTGGGGTCCCTTTGGTCTGGACTCATTGTGTCCATCGCCTCAG
Seq C2 exon
AGCCTGACTGCCCACTGCCACCAATGCGCCATCGTCACCAGCTCCAGCCACCTCCTGGGCACCCACCTGGGTGCTGAGATCGACCAAGCCGAGTGCACCATCCGCATGAACGACGCTCCCACCACCGGCTACGAGGCCGATGTGGGCAACAAGACCACCTTCCGCGTGGTGGCCCACTCCAGCATCTACCGCGTCCTCAAGAGGCCCCAAGAGTTCGTCAATAAGACCCCGGAGACCGTCCTCATCTTCTGGGGGCCGCCGGCCAAGATGCAGAAGGGGCTGTTGAAGATCATCCAACGCGTCGGCGCATCCTTCCCCAACATGACGGCCTACGTCGTCTCCCCGCACCGCATGAAGCAGTTTGATGAGCTCTTTCGGGGGGAGACGGGGAAGGACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005298:ENSGALT00000008495:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.053
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=PU(16.7=42.6)
A:
NA
C2:
PF0077713=Glyco_transf_29=PD(82.1=96.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCTCTTCGCCCTGCTCATG
R:
ACTCGGCTTGGTCGATCTCAG
Band lengths:
250-407
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]