GgaINT0057453 @ galGal4
Intron Retention
Gene
ENSGALG00000003516 | TCIRG1
Description
V-type proton ATPase 116 kDa subunit a isoform 3 [Source:RefSeq peptide;Acc:NP_990053]
Coordinates
chr5:207378-207881:+
Coord C1 exon
chr5:207378-207549
Coord A exon
chr5:207550-207646
Coord C2 exon
chr5:207647-207881
Length
97 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TTCCTTTCTTTCCTTGGCAGGGT
3' ss Score
10.35
Exon sequences
Seq C1 exon
AGCTCTCTGAGGTGCTGTGGACCATGGTGATGCACAATGGCTTTGTGGGGCTGAGCTACGTTGGTGGTGTCGTGCTGGTGCCCGTCTTCGCCGCCTTCGCCGTGCTGACCGTGGCCATCCTGCTGGTGATGGAGGGGCTCTCCGCCTTCCTGCATGCCCTTCGCCTGCACTG
Seq A exon
GTGAGCCTAGTGGATATGGAGGGGACAGAACCCCGCGCGCCCCCCCTCCCCACCCCGCCAGCCCTCACTGTGCCCTTTTCCTTTCTTTCCTTGGCAG
Seq C2 exon
GGTGGAGTTTCAGAATAAGTTTTACGTGGGTGCTGGCTACAAGCTGTGCCCCTTCACCTTCGCGCCCGATCCCTGGGAGTAACTGAACTGTGCTGCATGGACCTGGGGGGCTCCGCGTTGCTGGGACCCCCCAGTGCCATGTGGCGGGGGGTGGGTTGGCTGCATGCTCCCTGGCCCCGTCCTCTCCTTTTCCAAGCCTAGAGGTTTCTGCAGTGAATAAAGCCCCCCGGCTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003516:ENSGALT00000005558:18
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(7.1=100)
A:
NA
C2:
PF0149614=V_ATPase_I=PD(2.6=75.0)
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:
CTGAGCTACGTTGGTGGTGTC
R:
GTGAAGGGGCACAGCTTGTAG
Band lengths:
179-276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]