GgaINT0040081 @ galGal3
Intron Retention
Gene
ENSGALG00000006538 | TBC1D12
Description
NA
Coordinates
chr6:21164550-21165098:+
Coord C1 exon
chr6:21164550-21164678
Coord A exon
chr6:21164679-21164988
Coord C2 exon
chr6:21164989-21165098
Length
310 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGC
5' ss Score
7.14
3' ss Seq
GTGCTTTACTGTTTCTGCAGATG
3' ss Score
9.5
Exon sequences
Seq C1 exon
GTACAAGGGATGTCCTTCATTGCTGCTGTGCTCATTCTCAATCTGGAAGAGGCAGATGCTTTCATTGCCTTTGCTAACCTTCTAAACAAGCCATGCCAGCTGGCCTTTTTCCGTGTGGATCACAGCATG
Seq A exon
GTATGCAATAGTTTTCTGGTTTTGAACCTTAGCATTCTTTTGACTTGAAGCATATTTGGCTTGTTGATGAATTCCTGTTGTCCTCTTGAATAACGGAGAACTCTAACCTGTTGTTACAAAACTGAGAATACCGGATACTAATCCATAGAACATGTTCTCCTGTTTTGACTTTTCCTCTAGAATCACTTGTTTTCCCTGTCCTAGGAAGTCATATTGTGCTATATTGAGATCCTCAAGTCTTGGTGGGATTTATTTTATGACCCAGCTTTCTTTTAATGACTGCTTATGAAGTGCTTTACTGTTTCTGCAG
Seq C2 exon
ATGCTGAAATACTTTGCAGCCTTTGAAGTATTCTTTGAAGAAAATCTTCCCAAATTGTTTCTTCATTTCAAATCATACAGTCTCACTCCAGACATATATTTGATAGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006538:ENSGALT00000010562:8
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:
PF0056613=RabGAP-TBC=FE(18.4=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(15.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGATGTCCTTCATTGCTGCT
R:
CAAATATATGTCTGGAGTGAGACTGT
Band lengths:
225-535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]