GgaINT0047679 @ galGal3
Intron Retention
Gene
ENSGALG00000010943 | E1C4S3_CHICK
Description
NA
Coordinates
chr7:21123259-21123778:+
Coord C1 exon
chr7:21123259-21123312
Coord A exon
chr7:21123313-21123640
Coord C2 exon
chr7:21123641-21123778
Length
328 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
ATTTCATATTTTTTCCTCAGGTG
3' ss Score
10.51
Exon sequences
Seq C1 exon
GCTACATTTAAAGGCTGGATGGATATTATGTATGCAGCTATTGACTCAAGAGAC
Seq A exon
GTAAGTACTGAGAATATTTTGAAGTACATTTTATCCTTGACACATGTCTATCAACAAGTGTATATTTATATTTCTTCCAAAAGTGAATAATATGCATACAGGAAGATGAAACAAAATTAAATGAACTAATATGAGATTCTGCTGTGGCAAATTATTGTAACAAATTTGAATGCAAACTGCAAGATGCTGTTAGTAATAGATGGAATGGACAAAAATACACTGATATAAGTGACAAGGAAATAAAAGATATTTTGTCCAAGATTGCTGCTTGTTCAATTGAAATTTTCATATGAAATCTTAAGAATGATATTTCATATTTTTTCCTCAG
Seq C2 exon
GTGTTACAGCAACCCAAGTATGAAGACAACCTGTACATGTATTTGTATTTTGTCATCTTTATCATTTTTGGGTCTTTTTTCACCCTGAATCTGTTCATTGGTGTCATCATTGATAACTTCAATCAGCAGAAAAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943:ENSGALT00000017814:22
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:
PF0052026=Ion_trans=FE(7.4=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(15.3=76.1)
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:
GCTACATTTAAAGGCTGGATGGA
R:
TCTTTTTCTGCTGATTGAAGTTATCA
Band lengths:
190-518
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]