DreINT0000082 @ danRer10
Intron Retention
Gene
ENSDARG00000041685 | A2ML1 (3 of 13)
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr15:21294537-21296260:-
Coord C1 exon
chr15:21296119-21296260
Coord A exon
chr15:21294763-21296118
Coord C2 exon
chr15:21294537-21294762
Length
1356 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGT
5' ss Score
7.48
3' ss Seq
TTGTTATTTTTGCACCACAGAGA
3' ss Score
7.26
Exon sequences
Seq C1 exon
CGAGGACTGGTGTTGTGAACACTGCTCGATCGAGAATGGGGTTTTCAAGACCAGAATCTTCTCTTGTAAATCGAGATTCTCCCACAGTGACGATTCGGACCGTCTTCCCAGAAACATGGATCTGGGACCTTGCTGAAGTGGG
Seq A exon
GTATGTGAGGCAAAATCAGTGCATTTGTCATCAACTCATGTCTCTCATACATCTCTTCAGGTGCCCAGGACAGTAAATACCTGGGAGCTTTGCAGATTCTGAATGCATTTTTGTTTTGTTTAATGTTTACTGTTCTTTGTCAAACATTCGTTTAGTTTCTCAAAATTATCTCAGGCATGACTAGTCTCGAAAGCACCAATTACCAACATAGTCCCACGGCAATTCATAACTTTTCGATTTAGTGGCTAATTCGTATGAATACCTACGATCTAATTCGTACAATTTAGTGCGATTTGCTCATCCCCCAATGACGGTTAGGTTTAGGGGTGGGGTTGGGTGCCACGCCTCCTTTTTAAAATCATACTCATACTGAACTCGTAAGAATTAGTCACTAAAATTTCACTTTTCTTGTGAGATTAGGCTGCAATTACACCCTTTCACTTGACACACCAAACATAGCTTAGGTCTACAGATTGTGTAAATACAGTGCATTCAGACAGAATTCACTATGCTTAACCTTGTGCCATTCCACAATAAAAAATATATATTTTACTTTTAAAAAATAGAGAAAAACAAAACCTTATATTGATAACGAGGAAAAAAAATGTTGGAGCATTTCAAATTTAAACAGCATTTGCCTTGACACACCAAACATAGGTGATGCAGGAGTTTTGCCTCTAGCAAATTTGACTAAATCAATAGACGAATGCTAACATGGATGGACCTTGTTTTCTCATCTTCCTATAAGATCCTGTTTGGAAGAAGCAATTAAACCTATACTAAACTGACCTGACCTACTGAAAATTTTCAGTAAAGAGTGTATGATTCTCTTGCTGTTTAGTGATTCTCTTGATTGAACTTTTAACATTAAAAGACAATGTCACTTTAACATCCTGTGCACAGACGTACACTGCCAAGAATTTAATTATTTTTGTAATTTGTTTATGCTCAATAAAGGCATCACAACACACATTTAAAATTATTTTTACATGGATATTTTTAGGTATCCATCTTTCACCCCTTCTCAGATCGCACATGCAGAGACCATCTGGCGAACAATATCTCCTTAACTAAGTCTGGCAGTCATCTGTAATTACATGAATTGACATGATTTGGAGGTAAAATAGCAGAGATTGGACTGCTAACTCAAAGACATGGTTTAATTGGTCTTTTCAAAATACTTAGGACTAGCCTAATGGCATTCCCAAAGTTAGATACTGCACACTAGAAATTAAGATGTCGTTTGCAAAAACAGATAACTTCAAAATCACATTTTTTGCAATTGTGTAACCAAATGTTGCTTACTTAAGTGCTGAGTCAGAATCAAACAGGCTTATTGTTATTTTTGCACCACAG
Seq C2 exon
AGACTCTGGATCAGCTGAGGTTCCTGTTACAGTTCCTGACACCATCACCACTTGGGAGACGGAGGCCTTCTGTCTTTCCTCCACAGGTCTGGGTTTGGCTCCTCCTGCTCAGCTGACAGTTTTCCAGCCCTTCTTCCTGGAGCTCTCTCTACCTTACTCCATCATCCGTGGGGAGATCTTTGAGCTCAAGGCCACTGTCTTCAACTATCTGTCCAAGTGCATCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000041685:ENSDART00000155787:17
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=PU(10.0=18.8)
A:
NA
C2:
PF0020717=A2M=FE(83.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGGACTGGTGTTGTGAACA
R:
GAAGACAGTGGCCTTGAGCTC
Band lengths:
344-1700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]