GgaINT1005025 @ galGal4
Intron Retention
Gene
ENSGALG00000019254 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr1:75539927-75540555:+
Coord C1 exon
chr1:75539927-75540011
Coord A exon
chr1:75540012-75540440
Coord C2 exon
chr1:75540441-75540555
Length
429 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TCCCTTGCTTTCCTAAACAGATA
3' ss Score
10.78
Exon sequences
Seq C1 exon
TGCTGCCAAAATTTGAAGTGATCTTTGAGGCACCAGTGAAGATTTATGCACTAGATAAAACTTTTCCACTTCGGGTATGTGGCAG
Seq A exon
GTAAGGGTTCTACTTGGAGAAGTGGGCCCTGTGCTAAATTTTGACCAGAGACAAGTACATCTCAGTTCAGGTATCATGAGACTCAGGAAATTTACTGCACTTCAGTTACAGCAGGCCAGAATATTCCATGGTATGTCTTTGAACCTTGATGCAAAACAAAACATTCCTAAAATTATTCTTCTTGTAATTTGATTTTCCAGAATAGAGTAGCCTAACACTAATTTTATTACAGGGCTCTTTATCTTATATCATTGCAGTGTTCTAGCTTGACCTTATTAAGTGGATCAGGTCTCTTGGGCCTGCACTGCTGCCATGTTTGTGATATATTGTGAGTAGCCATCAATAAGTATATCTAGGCTACACAAAGCAAGCACTAGTGTTTCCACACTTTGTGTGAATATCTCTTTTTTCCCTTGCTTTCCTAAACAG
Seq C2 exon
ATACACCTATGGGAAAGCTGTCCAGGGGATGGTTTATGTGAGTCTTTGTCAGAAGATATCTCAGTTCTTGCCCAGTGCTTCGAAACCTGATCTCTGTCAGGAATTCTACAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000019254:ENSGALT00000037222:8
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:
PF0183514=A2M_N=PD(6.0=20.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGCCAAAATTTGAAGTGA
R:
TGGTTGTAGAATTCCTGACAGAGA
Band lengths:
199-628
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]