GgaINT0057522 @ galGal4
Intron Retention
Gene
ENSGALG00000003516 | TCIRG1
Description
V-type proton ATPase 116 kDa subunit a isoform 3 [Source:RefSeq peptide;Acc:NP_990053]
Coordinates
chr5:204687-205335:+
Coord C1 exon
chr5:204687-204899
Coord A exon
chr5:204900-205184
Coord C2 exon
chr5:205185-205335
Length
285 bp
Sequences
Splice sites
5' ss Seq
TCGGTGCGT
5' ss Score
8.67
3' ss Seq
TCCGGATGCTCTCCCCACAGTAC
3' ss Score
7.09
Exon sequences
Seq C1 exon
GTGCTGGAGGAGACGGAGCAGTACCTGGCGCAGGTGCTGGACAAGGTGGTGCTGGCACTGCCCTCCTGGCGGGTGCAGGTGCAGAAGATGAAGGCCATCTACCTCGTCCTCAACCAGTGCAGCTTGGACGTCACAGAGAAGTGCCTCATTGCTGAGGTCTGGTGTCCCGTGCAGGACCTTCCCCAGGTGCAGGAAGCCCTGCGCCAAGGATCG
Seq A exon
GTGCGTGTCTTCTTGTGGGGTTGCTTGGTTGGCTCTACGTCCTCATGCCAGGGTTGCTTTGGTTGACCCATGTCCTTGTGCCAAGAGCTGCTTGGTGTGCTCCCACCAGTGTCAGAGGTGCCACCCTCAAGACGTGCCCCATGGTGGTACACGTCATGGGGAGAGTTTTTATCCCCCACCCCTGGCGCCCCGCATCCCTGTGCCACCCCTACTTTGCGTCCACCCTACTCCAACATGGCCATGGGTTGGGTGCCATGGGTCAGGCTCCGGATGCTCTCCCCACAG
Seq C2 exon
TACAAGAGTGGCTCGAGCGTGGAGTGCTTCGTGCAGAGGATCCCCACCTTGGAGAGCCCCCCAACTCTCATCCGCACCAACAAGTTCACTGCTGGCTTCCAGAGCATCGTGGATGCCTATGGGGTGGCCAGCTACCAGGAGGTGAACCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003516:ENSGALT00000005558:8
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:
PF0149614=V_ATPase_I=FE(8.7=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(6.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGAGACGGAGCAGTACCTG
R:
TGGAAGCCAGCAGTGAACTTG
Band lengths:
308-593
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]