GgaINT0057518 @ galGal4
Intron Retention
Gene
ENSGALG00000003516 | TCIRG1
Description
V-type proton ATPase 116 kDa subunit a isoform 3 [Source:RefSeq peptide;Acc:NP_990053]
Coordinates
chr5:203600-204243:+
Coord C1 exon
chr5:203600-203694
Coord A exon
chr5:203695-204116
Coord C2 exon
chr5:204117-204243
Length
422 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CCCACACTGCATCCCCACAGCTT
3' ss Score
7.47
Exon sequences
Seq C1 exon
GGCCCCCCTGGATCGCCGCCGTCCAGCCGGGCGTTCTCTGAGCACGAGCCGCTGCTCGACCCCTCTGTGCAACACCACCTTGACCGCAAGATCAA
Seq A exon
GTGAGTGGGGCTGGGGGGGTGTGGGGCAGCTGTGGGGCAGAGGCGTGGCTGTAGGGTAAGGGTTGGAGATGGGTCGTGGGGCAGTGGTGTGGCTGTGGGATGAGGGTTGGAGATGGGTCGTGGGGCAGTGGTGTGGCTGTGGGATGAGGGTTGGAGATGGGTGTGGGGCAGTGGTGTGGCTGTGGGATGAGGGTTGGAGATGGGTGTGGGGCAGTGGTGTGGCTGTGGGATGAGGGTTGGAGATGGGTCGTGGGACAATGCTGTGGTTCTAGGACAAGAGCTGGAGGTGGGCCATGCATCAGGGACAGTAAGCAAAGCTGTAGGATGAGGGTTGGAAATAGGCCATGGAGCGCGGGCATGGCCACGGGTCGGGGTGACAGCAGAGCCGTGCCCATCCCAGTGCCCACACTGCATCCCCACAG
Seq C2 exon
CTTTGTGACTGGTGTCATCCACCCGTGGAGAGTGAATGCCTTTGAACGGCTGCTGTGGCGAGCCTGCCGTGGCTACCTGGTGGCCAGCTTTGTGGAGATGCCTGAGCCCCTGGAGGACCCGAACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003516:ENSGALT00000005558:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(3.8=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(5.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCGGGCGTTCTCTGAG
R:
GTGTTCGGGTCCTCCAGGG
Band lengths:
198-620
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]