GgaINT0109021 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:26132503-26133248:+
Coord C1 exon
chr1:26132503-26132594
Coord A exon
chr1:26132595-26133001
Coord C2 exon
chr1:26133002-26133248
Length
407 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
CATGTTTTTAAATATTTCAGAGC
3' ss Score
8.37
Exon sequences
Seq C1 exon
AAAGAATCCACACAGGCTGAAGTGGAAAAATACAAAGAAATGTATCTGGAAGAAATGAAAATTAGAAGAAGCCTAGCAAATAAGCTGGAAAG
Seq A exon
GTAAGTCCATGCTTTTTTGGAGTGATAACAAGATGTGAAGTAGCAGTAGCTTGCATGAAAAACCTTGTACTGTTTCCTCCTAAAATCCCTCTTTTATGTCTTGTCAGCATTATGGATGTAAACCTAAGATTACATTTTTATAAAAGAGCCCTCTAAAACCCTTCCCCTTTATTTTTGGAACCGCCATCATTTCACTTCAGTGTTCTAGCAGTCACACCACTAGTCGTGGCATCACTAGCGTGTGTTTGAAGTTGATAGCATTTAACAGGTGGCCTTTGGGTCCCTCTCATTTTGAACTCTTAATGCCTTCAGTTTTCAAAAGCTGAAGAGTAGTCAAAGACCTGGAAGAAGCGACTCTGCAAAAATATTACCAAAGATAATTCTTTGCATGTTTTTAAATATTTCAG
Seq C2 exon
AGCCAATGAGAGACTAGCAGAAGCCAATGCTAAGCTCCTTCAGGAGCGCCACAGAAGCAAATCTTTAATTGCAAGTAGCATTGTCACTGGAGGTCTGTCTGCAAGTCCAGTTCTGTATTCAACTGAACTGGGACATCTTGGCAACAATTTGGCACTGAACAGAAGTCTCAGCCTAGGAGGAAGCTTCCTAGGCACAGCTGGGAATGCGTTATCATCAAGAAACAAGGTTGAAGCCTACATGGCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009104:ENSGALT00000014827:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.355 A=NA C2=0.385
Domain overlap (PFAM):
C1:
PF120013=DUF3496=FE(37.5=100)
A:
NA
C2:
PF120013=DUF3496=PD(38.9=85.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGAATCCACACAGGCTGAAGT
R:
CCATGTAGGCTTCAACCTTGT
Band lengths:
334-741
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]