GgaINT1027385 @ galGal4
Intron Retention
Gene
ENSGALG00000003516 | TCIRG1
Description
V-type proton ATPase 116 kDa subunit a isoform 3 [Source:RefSeq peptide;Acc:NP_990053]
Coordinates
chr5:206965-207289:+
Coord C1 exon
chr5:206965-207075
Coord A exon
chr5:207076-207168
Coord C2 exon
chr5:207169-207289
Length
93 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TCCCACCTCTGTCCCTGCAGCAC
3' ss Score
10.95
Exon sequences
Seq C1 exon
CCTGCAGCCACGGTGGAGCAGGAGCCACTGCTGGAAGGGCAGGAGGCCGGCAACTCTGTCAATGCCACCAAGGAAGATGTGGAGAGTGGGGGGCACGGCCCTGATGCCGAG
Seq A exon
GTGAGGGGCTGGGGGCTGGTGAGGGGATCTGATGTCCTTCCCCCCCCCCCCCCCACCAGCCCAACACACAGCGTCCCACCTCTGTCCCTGCAG
Seq C2 exon
CACATGGACTTCTCTGAGGTCTTCATGCACCAAGCCATCCACACCATCGAGTACTGCCTGGGCTGCATCTCCAACACCGCGTCCTACCTGCGGCTCTGGGCGCTCAGCCTTGCCCACGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003516:ENSGALT00000005558:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.405 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(4.5=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(5.0=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:
TGCTGGAAGGGCAGGAGG
R:
TAGGACGCGGTGTTGGAGAT
Band lengths:
169-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]