GgaINT0145583 @ galGal3
Intron Retention
Gene
ENSGALG00000000327 | Q804J3_CHICK
Description
NA
Coordinates
chr28:357828-358295:+
Coord C1 exon
chr28:357828-357893
Coord A exon
chr28:357894-358169
Coord C2 exon
chr28:358170-358295
Length
276 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
TGCTTTGGTTACCCCTCTAGATG
3' ss Score
8.17
Exon sequences
Seq C1 exon
TCGCCTTCCAGGAGCTGTGTCCATATGGCCACGGAGCCATCCCAGGTCCAGGTGACACCCGAGAAG
Seq A exon
GTATGGTGTGGTCCAGGGACAAGAAATGTGTCCCATAGGGGGCAAGGGGTGTCAGTCTAGAAACAACCATACCTTGGCTATCAGGAGAGAAGAGTTGAATGGCAGTGGCAGTAAGGGGGTGATGTGCAATCCCTCCTGAGCTCATGGTATCTGCTCACCCATGCAGTCCCCAGCTCTGGCAGGAGTCTGGGATTTCATGGCCAGCTCAGAGAGGACAGGGGTGTTTCTGGCCACATGCTCCCATGTGATTTCACCTTGCTTTGGTTACCCCTCTAG
Seq C2 exon
ATGTGAATGAATGCTCAGAGAACCTGGGTGTCTGCATCAACGGGGCCTGCATTAATACTGATGGCTCCTTCCGCTGCGAGTGCCCCTTTGGGTACAACCTGGACTACACAGGAGTCAACTGTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000327:ENSGALT00000000433:51
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:
PF0068312=TB=PD(11.4=21.7),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
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:
TCGCCTTCCAGGAGCTGTG
R:
ACAGTTGACTCCTGTGTAGTCCA
Band lengths:
188-464
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]