GgaINT0125059 @ galGal3
Intron Retention
Gene
ENSGALG00000001226 | E1C8X7_CHICK
Description
NA
Coordinates
chr17:823040-824759:-
Coord C1 exon
chr17:824658-824759
Coord A exon
chr17:823259-824657
Coord C2 exon
chr17:823040-823258
Length
1399 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCACGCTCCCCTGTCTACAGCGC
3' ss Score
8.31
Exon sequences
Seq C1 exon
GTGTACCGCCTGCTATTTGGGGCCTCTCCTTTGGCACCTGATGACACCCATGAGCGAGACCTGTGGGATCGGTTTGGACGCGGTGAGATGGCACAGCTGGAG
Seq A exon
GTGAGGAGCGTGTGGGGATGTGGCAGAGCCAAGATCATCCTCCATATCCCCTCTGCTCTGCATGCAGGGTTGTCTGAAGTTATCTGTCTGAGTAGGGACACCGTCAGGTGGCCAGAGTGGCAGTAGGGCCACCGGGGTTCCATCCTGGTGCTGACACCGATCCCTCAAGGCAGGCTTATGCCCGTGCCTTGATTTCCTGCCGCAAAGGGTGATGGCACTGCCAGGAAAGGAGGAGGAAATCATTACCCTCTGTGGCCCCAGGTGCCCTTGGCTGTGGGGAGAGAGGAGAGAGTCCCGTGACATGCCAAGGATGGTGCTCCCCCAGCTGTGCATGTTCCTATCATCCCCACTGTGGACATGGGTGCTGCGGGGGCATTCACGTGTGCTTGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGGGGGCATTCAGGTGTGATTGGGTTGGAGGGGGCATTGCGGAGCTCCCATGCACCCGGGGAACCCCCGCAGTCCCATCTACCCCCGTTGGTCCTCTTGCAGAAGAGCCTCCCCAGTGGCTGGAAGAGCCTGCGGGAGGGGCTGGTCCACAGGGCCCTGCGCGACCCCTCTGCAGCCTTGCAGCGGCCGGCGCTGCTCCGCCTGCTGTCCCAGGCCCTGGGCCTTACCAGTGCCGCCGCAGCCCCCGCTGGCTCTTACAATCCCCAGGCCTTTGTTGCTGAGATGGAGGTGAGCAGCCAGCTGCAGCGAGCCACACTCTGTGGGGTGGGCACAGCCGTGGTGCTCCCACCCCCCCAGACAGCTCAGCCACGCTCCCCTGTCTACAG
Seq C2 exon
CGCGTCCTCTTCACTGCACCGGTTCTGGAGCAGCTGACGTGTGAGCAGAGCTCGGGGACGCTGCGCCGCCTCCTGCGTGTGGCTCCCAGCCAGCAGCCGCTGCTGCAGGCGTACCGCGTACTGGTGTGCAACGGCAGCCAGGCAGCCCGCAAGGAGCGCTTTGCTCAGCTGGCTGCCGAGCTGCGGGACCAGATGGACACCCCCAAGATTGTCAGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001226:ENSGALT00000040504:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.124 A=NA C2=0.058
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTACCGCCTGCTATTTGGG
R:
GCTGACAATCTTGGGGGTGTC
Band lengths:
318-1717
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]