GgaINT0121125 @ galGal3
Intron Retention
Gene
ENSGALG00000019254 | A2ML1
Description
NA
Coordinates
chr1:79193242-79193728:+
Coord C1 exon
chr1:79193242-79193467
Coord A exon
chr1:79193468-79193601
Coord C2 exon
chr1:79193602-79193728
Length
134 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
CATCCCTGGTGCTCCCTTAGATC
3' ss Score
8.12
Exon sequences
Seq C1 exon
TCCCAGTGGAAAACAGACTGTCACTGTCACTGTACCTAACACCATCACAGGATGGAAAGCTGGGATGTTCTGCACAGGACATAATGGCTTCGGACTTGCTCCAACCTCCAGTCTGCTTGTTTTCAAGCCCTTTTCTGTGGAGCTCACACTTCCGTCTTCTGTGATCCAGGGTGAGACCTTCATCTTGAAGGCCACAGTCCTCAGCTACCTGCAACAATGTATGAAG
Seq A exon
GTAGGTGAGCCCTGACGGTCTTCGTAAGAAAAATGGGGTATGGTTAGGTAAGAGATGGCTGAAGCCCCTGCCTTATCTTAGAAAATATGTGACATTTGTCTTGTTACCGTCTGTCATCCCTGGTGCTCCCTTAG
Seq C2 exon
ATCCAAGTGACTATGGAGGAGTTCCCACAGTTCCAGCTGAAGTCATGTGAGGGTTGTGTCTACAGCAGCTGCTTATGTGCTGGAGAAGTAAAGACATTTCTGTGGAGTGTCACAGCTGAGCGACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000019254:ENSGALT00000023052:6
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:
PF0020717=A2M=PD(35.6=42.1)
A:
NA
C2:
PF0020717=A2M=PD(4.4=33.3)
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:
GGAAAGCTGGGATGTTCTGCA
R:
GCTGCTGTAGACACAACCCTC
Band lengths:
242-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]