GgaINT1027384 @ galGal4
Intron Retention
Gene
ENSGALG00000003516 | TCIRG1
Description
V-type proton ATPase 116 kDa subunit a isoform 3 [Source:RefSeq peptide;Acc:NP_990053]
Coordinates
chr5:206761-207075:+
Coord C1 exon
chr5:206761-206877
Coord A exon
chr5:206878-206964
Coord C2 exon
chr5:206965-207075
Length
87 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
AGGCTGGTGTCCCCACGCAGCCT
3' ss Score
4.16
Exon sequences
Seq C1 exon
GTGCCGGTGCAGATGGTGCTGGTGGTGCTGGCACTGTTGTCAGTGCCTGTCCTGCTCCTGGGGACACCCCTGTACTTGTACAAGCAGCGGCACAGGCGGAGGGCGAACTCAATCCCG
Seq A exon
GTGAGGCTGGGGATGAGGTTGAGGGTCTTGGCTGGTGTTGGGGGGGCACAACAGCATGGCCTGACCAAGGCTGGTGTCCCCACGCAG
Seq C2 exon
CCTGCAGCCACGGTGGAGCAGGAGCCACTGCTGGAAGGGCAGGAGGCCGGCAACTCTGTCAATGCCACCAAGGAAGATGTGGAGAGTGGGGGGCACGGCCCTGATGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003516:ENSGALT00000005558:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.405
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(4.7=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(4.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTTGTCAGTGCCTGTCCTG
R:
CTCCACATCTTCCTTGGTGGC
Band lengths:
168-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]