DreINT0000035 @ danRer10
Intron Retention
Gene
ENSDARG00000078183 | A2ML1 (10 of 13)
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr3:3681741-3682508:+
Coord C1 exon
chr3:3681741-3681925
Coord A exon
chr3:3681926-3682286
Coord C2 exon
chr3:3682287-3682508
Length
361 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CTTTTTTTTTTCTCGTTTAGGAC
3' ss Score
12.21
Exon sequences
Seq C1 exon
GTACTACTCTCCACTGGTCTCAGACGACATCTGGGGATACTCTGGCAGTGGAGATCAGTGCATATGTGCTGCTAGCGGTTCTAACTGTACAGCCTGTGACCACTGCTAATCTGGGCTATGCTAACCGCATTGTCAACTGGCTCGTGGCCCAGCAGAATCCCTATGGTGGTTTCTCCTCCACTCAG
Seq A exon
GTGAGTTCAGCTAGGAAATGATATCGTAATTCAGGCATGGTTTAACATTTGAACTAAAGTGCGTTATTTGGGGCATTGTGTAACTTGTACTGAAACTTGTTTGATTACCTTGAAGCTCACGCTTTTACAAAAACTGCACTGCATTCAAGATACCTCTACCAAATAATATAAATATAGGATGTTTTCTAGTGAAATACAGATGCTGTGACTCCTGTGCTCAAGTTGCAGTGCTTAAAGGTTTAGTTTGTTTCCACTAGTCAAACTGTGGCAAATCCCAAGCAGCTTAATTCATAAGTGTTCTGAATTTGATCCATTTGAAACAGCTTCTTTTAAGCTTTGGTCTTTTTTTTTTCTCGTTTAG
Seq C2 exon
GACACCGTGGTGGCACTTCAGGCCTTGTCTATGTATGCTGCACAAGTCTTCAGCCCTGGAGGCTCCAGCACCGTTACAGTTCAGTCCTCAGTGCCAGCAGGTGATGTGTTCAACTTTGACGTGACTCCCAACAACCGCCTGCTGTACCAGGAGAGTCCACTGAATAACTTTCCAGGCACATACAGTGTTGTAGCAGCTGGAGCTGCCTGTGCTTCTGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078183:ENSDART00000158885:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(26.1=100)
A:
NA
C2:
PF076789=A2M_comp=PD(5.6=17.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGGGATACTCTGGCAGTG
R:
CTCCAGCTGCTACAACACTGT
Band lengths:
358-719
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]