GgaINT0125408 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E1C4E7]
Coordinates
chr17:6790683-6791448:-
Coord C1 exon
chr17:6791247-6791448
Coord A exon
chr17:6790929-6791246
Coord C2 exon
chr17:6790683-6790928
Length
318 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGG
5' ss Score
10.26
3' ss Seq
CTCTCCTCCCTGCCCTCCAGTTC
3' ss Score
9.5
Exon sequences
Seq C1 exon
CCGGCAGCCAGCCAGCACCGAGCCCTGTGCCAGCGGCAGTTCCCACTCCAAGTCCTTCGACCAGCTCAAGTGCGGGCAGTACCTGTGCAGTGGGGATGCCACTGACTCAGTCAGCGTCACCTCCGCCGGCTCCAGCAGCTCCGACGTGGAGGAGATCAACATCAGCTTCATCCCTGAGTCCCCCGACTGCCAGGAGAAGAAG
Seq A exon
GTACGGGGCAGCTTGCGGGGCTCCTGAAGCAGGTGCTCCCCTCAATAGGGGATGGCCCCAGCCTCGCACCGGGGCTGGGGAGCTGAGGGCTGCTTCTGCCCTGCTGGAGCAAGGGAGGCCCCTGCTCTTTGTGGTGGAGCCGGGCTTGCCTTGGCACAGCAGGGCCTGGCAGCTCTGGTTGCTGTATGTCCCCTGCTGGCACAGGGCAGTGAGATCCCTCTGGCCTCCCTCCCCCAGCACTCGTACACCCCGTCTGTGGCTGATGGAGAAGCTAAACCCACTGTGTCCTCCGCATCCCCTCTCCTCCCTGCCCTCCAG
Seq C2 exon
TTCTGGGAATCCACCTCTCTCTCCTCCCTGGACACGTCGGGCATCGGCTCGGGCTCCAGCAGTGCCTCATCCTCCTCCGTCTCCTCCACGCCGGTGACAGCATCCCGCACTCACAAGCGTTCCGTCTCCGGCATCTCCAGCTACTCGTCCCTCTCGCTGCCCCTTTACAACCAGCAGGTCGATGACTGCTGTATCATCCGCGTCAGCCTGGCTGTGGACAACGGCAACATGTACAAGAGCATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003412:ENSGALT00000005397:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.176 A=NA C2=0.256
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0078818=RA=PU(22.7=24.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTTCGACCAGCTCAAGTG
R:
GACGCGGATGATACAGCAGTC
Band lengths:
355-673
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]