GgaINT0057523 @ galGal3
Intron Retention
Gene
ENSGALG00000003516 | TCIRG1
Description
NA
Coordinates
chr5:96155-96521:+
Coord C1 exon
chr5:96155-96305
Coord A exon
chr5:96306-96381
Coord C2 exon
chr5:96382-96521
Length
76 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
ATGGTCCCTGTGCCTTGCAGCCC
3' ss Score
8.7
Exon sequences
Seq C1 exon
TACAAGAGTGGCTCGAGCGTGGAGTGCTTCGTGCAGAGGATCCCCACCTTGGAGAGCCCCCCAACTCTCATCCGCACCAACAAGTTCACTGCTGGCTTCCAGAGCATCGTGGATGCCTATGGGGTGGCCAGCTACCAGGAGGTGAACCCTG
Seq A exon
GTAAGGACCATTGTGTCCCTCTACTGCACCCCAGTGCTGAGGGGGCCCCGTGTGACATGGTCCCTGTGCCTTGCAG
Seq C2 exon
CCCCCTATGCCATCATCACGTTCCCTTTCATCTTTGCCATCATGTTTGGGGACGTGGGGCACGGGCTGCTCATGTTCCTCTTCGCCCTCTGGATGGTGCTGTTTGAGAACAGCCCCAGCCTGCAGCAGGGCAGCAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003516:ENSGALT00000005558:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(11.2=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACTCTCATCCGCACCAACA
R:
GAAGAGGAACATGAGCAGCCC
Band lengths:
173-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]