GgaINT0125397 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E1C4E7]
Coordinates
chr17:6794291-6794778:-
Coord C1 exon
chr17:6794499-6794778
Coord A exon
chr17:6794436-6794498
Coord C2 exon
chr17:6794291-6794435
Length
63 bp
Sequences
Splice sites
5' ss Seq
CTGGGAAGC
5' ss Score
1.05
3' ss Seq
TTAGTTAATCTGCCTTTAATCCT
3' ss Score
-5.82
Exon sequences
Seq C1 exon
CACCATCTCCTCCATCCTGGGCGCCTGGCTGGACCAGTACTCAGAGGACTTCCGCAAGCCCCCAGACTTCGCCTGCCTCAAGCAGCTCATCTCCTACGTGCGCCACAACATCCCCGGTTCGGACCTGGAGCGCCGAGCCCGCATCCTGCTGGCCCAGTTCCAGCAGCAGGAGCAGAGCGAGACCGAAGCAGAAGGTAGGGGTGGTTCCCTGCTCATGGGGCTGCTGGGGGCTGTAGGGAGCTTCAGGTGTCACCACGTGGCTGGACGTGGAGGGACGCTG
Seq A exon
GGAAGCTGATTCTGCTGAGGCAGAAGTGGGATTTCTAAGTGGATTAGTTAATCTGCCTTTAAT
Seq C2 exon
CCTCTGCGGACACTTGCATCCGGGTTAAATATGCCTGCTCATTTATCTGAGCCTTATCTTGAGGTGCGAAAGCAGAGCGCTGGAGGTGGGATGTGGTGTGGGATGCGGCGGGGTTCTGTGCTTGTGGCTGCACTGCAGTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003412:ENSGALT00000005397:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PD(30.2=34.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCAGAAGGTAGGGGTGGTT
R:
TGAGCAGGCATATTTAACCCGG
Band lengths:
136-199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]