GgaINT0109018 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:26130305-26131446:+
Coord C1 exon
chr1:26130305-26130446
Coord A exon
chr1:26130447-26131164
Coord C2 exon
chr1:26131165-26131446
Length
718 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
CATTTTATTACTGTCTATAGGTT
3' ss Score
7.19
Exon sequences
Seq C1 exon
GTGCAAGAGGCTTCTGAACAGAGCTGTGAAGAAACTAAGGATGTATGAGGCCAGAGAAAGAGAGTCCCAATTTAATTTCCAGGGAGAAATGAAGAACAGGTATTCTGAAATGGTGAATGAAGTTGGCAAATTAAGAACAAAG
Seq A exon
GTAAGTTCTGGTTGTTTCTTTGTTGTTTTTTTGTTTGTTTGTTTGTTTGTTTGGGTTGTGTTAATTTCTGGAGACCTGTAATATTCTTTTCAGTAGGTATGGAAAAGTTATATTTCTGGGAGAGAAGAGGAAATTGGCTTCACAGTTGACCTTGGAAACTTCTGAAACATCTCATATTTCCTACGTATTCTTGCAACCAGACAGTGGATTTGACCTAGAGAGAAAATGCCTTCCTTTACCACTGCTGTGGAAGCTGCTTTTTGAAGCACAGTTTACAAAGCTTTCAAGAGCAATGGCAGGAGGAGTACTTGTTTCCTGTGCCCAGTTAGCTCAGTACTGGTGGACCACTCCCCCTGAAGCACGATAAGCATTCTTTCTGGTATCTGGGTAGAGTTGTTTGATTTCCATTGAGCAATAGAGCAGTGCACAGAAGAATGGCCCTAGCACATTTCAGCCCACTGCCACAAGTGAAATTCTTATAGTTTGGTACATGTTGGTCTTCTACTTGCTACACAAGAACTGAGGAAGGTGGAACTTGAGGAATCCTATTTGCAAGAATTTAAAAGCTGTTCTTCTATTAAAAGATGGGCTTGACTTTTTGCTTTGACTCCGATACTGAGTCAGCAGATGACAGTTAGAGACTGGATGGTCTTCCCCTTTATGAATTTTCAAAGAATAATTTTACACCCCTCTAAGTTCATTTTATTACTGTCTATAG
Seq C2 exon
GTTACTGAACTTTCTCAGCAGCTGGAGTTAGAGTCTAAAAAATGCATCCAGCTGGAAGCACAAAACCAGGATTTGCGAGAAGAGCTGTCTGCTCTGCGTGAGAACCATGAAAAACTGGAGAAGAGCAAGTGCCAGCTGAAGGAAGAGGTGGCAAACCTCAGACATCATTTGGAGGCTAATATGGTGAACCACAGCCAAATAGAACAGTACAAGAAAGAGATGGAAGAACGAGCAGGACAAGAAATCAGACAAAAACTACAAGAAGTCAATTTGTTTTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009104:ENSGALT00000014827:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.146 A=NA C2=0.372
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF120013=DUF3496=PU(25.6=16.8)
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:
AGGCCAGAGAAAGAGAGTCCC
R:
GTCTGATTTCTTGTCCTGCTCGT
Band lengths:
345-1063
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]