GgaINT0057524 @ galGal4
Intron Retention
Gene
ENSGALG00000003516 | TCIRG1
Description
V-type proton ATPase 116 kDa subunit a isoform 3 [Source:RefSeq peptide;Acc:NP_990053]
Coordinates
chr5:205412-205933:+
Coord C1 exon
chr5:205412-205551
Coord A exon
chr5:205552-205775
Coord C2 exon
chr5:205776-205933
Length
224 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CACGTTTTGTTCCCCCCCAGATC
3' ss Score
11.62
Exon sequences
Seq C1 exon
CCCCCTATGCCATCATCACGTTCCCTTTCATCTTTGCCATCATGTTTGGGGACGTGGGGCACGGGCTGCTCATGTTCCTCTTCGCCCTCTGGATGGTGCTGTTTGAGAACAGCCCCAGCCTGCAGCAGGGCAGCAACGAG
Seq A exon
GTGAGTGGGACACGGCGTGGGGCCATGGGTTGGAGGTAGAGGGCAAGTGCTGGGGGTTGGGGTTGGATGTAGAGGATGAGGTTGGAGGCATGAGATGGAGTTTGCTGTGGCACGGGGTCAGCTTGGGGCAAATTGAAGTTCTGGGCAGGGTGGTGTGGGATGGGAACTGCGTGGGCTGGGGGTGGTGGTGTGGGACGTGGGAGCCACGTTTTGTTCCCCCCCAG
Seq C2 exon
ATCTGGCAGATGTTCTTCAAGGGACGCTACCTCATCCTGCTCATGGGGGCCTTCTCCATCTACACCGGCTTCATCTACAATGAGTGCTTCAGCAAAGCCACTGTCATCTTCCCCTCGGCCTGGAGCGTGGCCACCATGGCCAACCACTCCTCCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003516:ENSGALT00000005558:10
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(5.7=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(6.4=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:
CCCCTATGCCATCATCACGTT
R:
TCCAGGAGGAGTGGTTGGC
Band lengths:
296-520
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]