GgaINT0057997 @ galGal3
Intron Retention
Gene
ENSGALG00000005197 | VPS37C
Description
NA
Coordinates
chr5:358371-359245:+
Coord C1 exon
chr5:358371-358542
Coord A exon
chr5:358543-359162
Coord C2 exon
chr5:359163-359245
Length
620 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TCTGCTGCTCTTTTCCCCAGAGA
3' ss Score
10.19
Exon sequences
Seq C1 exon
GTGCAGGAGCTGCAGCTGGAGAGGGAGATGGCACTCGCTGCCAACCGCAGCCTTGCTGAGCAGAACCTGAAGTTCCAGGTCCCGCTGGAGACCGGACGTTCTGAGCTCTCCAGCAAGTATGAGGAGCTGCAAAAGCTCGCCGAGCACTGTAAGGAGCAGAAGGCAAAGCTGG
Seq A exon
GTGAGTGACTCCAGTCTCGCTTCCTTTCGTAGAATTGCAGAACCACACAATGGTTGGGTTGGAAGGGACCTCAAAGCCCTCCCCTCTCCCCCAGCCCCAGTTCCTGCCGTGGGCTGGTTGTCCCCCAGCAGATCGGGCTGCCTGGGGCCACATCCAGCCTGGCCCTGGGTATCTCCAGGGATGGGGCACCCACAGCTCCCTTGGACAGCTGTGCCCGGGCCTCACCGCCCTCTGAGTAAATAATTTCCTCCTTACACCTAACCTAAATTTCCTATCTTTTAGTTTTAAACCCTTCTCCCTTCATTCTGTCCCTCTCTGCCTGTGTAAAAGATCTTCCTCCCCTGTTTATAAGCTGCCTTTAGATACCAATCAGGTGTGGCAGTGGTTAAGGCTGTTTCCTCATCAGATTTTTTCCTTACACCAACATTTTCCAAGGCAGGAAGGCGCTCTTGGAAGTGCACGTGGGGCACAGAAACGTGACAGTGAGGAAGAGAGCTCCTTCTGCTTTAGGTTTTCCTTGTGTCACAGTGCAAAGCTGTGCGATAGGTGACAGGCTCTGTTGGACAGGTCAGTGTTTTTGCCCTGTTCTGTGTTTATTTCTCTGCTGCTCTTTTCCCCAG
Seq C2 exon
AGAAATTTTCAGCCTCAATGCATCCTCAGATGTTGCTGGATCTCCTGCAGGTGGAAAGCCAAAAAATTGAAGAGGAGTCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005197:ENSGALT00000008347:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(38.0=100),PF133241=GCIP=PU(62.6=98.3)
A:
NA
C2:
PF072008=Mod_r=FE(18.0=100),PF133241=GCIP=FE(29.7=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:
CTGCAGCTGGAGAGGGAGAT
R:
GCTTTCCACCTGCAGGAGATC
Band lengths:
222-842
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]