RnoINT0000059 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161892448-161893307:-
Coord C1 exon
chr4:161893144-161893307
Coord A exon
chr4:161892598-161893143
Coord C2 exon
chr4:161892448-161892597
Length
546 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATG
5' ss Score
5.22
3' ss Seq
TTTTCCTTTCTCCACTTCAGGTT
3' ss Score
12.01
Exon sequences
Seq C1 exon
ACCTGCCTGTTTCCACAGCCCAGAATGGAAACTTCTCCTTCCCAATCATCGTCACTGCTGATCTGGCGCCAGCAGCTGACCTGTTTGTCTACACCCTCCACCCCAGCGGGGAAATCGTTGCAGATAGTGTCAAGCTCCAGACTGAGAAGTGCTTTAAAAACAAG
Seq A exon
GTGATGTTTCCCTTACCAGCAGGGTGGCCATTTTGCTTCCTGCTACCTCCTTTTTAAGGTTCGTGCTTACATGAACTTGTTTATTTGGTGTGTATGTGTGTGCCCATGCACACATGTATGCATGCGTGCTCTCGGGGTGAATGTGTTAAGAGCAGAGGACAGTTTGCAGGACTCCATTCTCTCCTGCCACCATGCGGGTTGGATAGACCTTAAACTGTGAGCCCTGATAGCAAGCATTCTCAACCACTGTGCTGTCCTCCAGCCCTGTCTCTATCTGCGCCCCCTCCCCTCCAATCTTCACACAGTAATCTTACAGTTAAATTACTGAAGAATGAGAGTCACAAAGAATTGTCTTGCTGACACCTGGTCATTGGAAGCTAGGGGATTTGGGGAGAGTGAAAAATATTCCCACAAGGAGCTGAGAATAGGCAGGAAAATGTACGTATAGAAGTCAGTCAGGATTTGTTTGGGAAAGGCTGGATTTATTCAAGTTTTCTTCACGTGTAATTGGCTCTACCCCTCATTATTTTCCTTTCTCCACTTCAG
Seq C2 exon
GTTAGCATAAAGTTCTCAAAGGAGCAGGACCTACCCGGCTCTAACACCAGCCTTCATCTTCAAGCGGCCCCTGGCTCCTTCTGTGCCCTGCGAGCGGTGGACAAAAGTGCCCTTCTACTGAACCACGGACAAGAAATGACACCAGAGAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:13
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:
PF077039=A2M_N_2=FE(36.7=100)
A:
NA
C2:
PF077039=A2M_N_2=PD(26.5=78.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTCCACAGCCCAGAATGG
R:
TCTGGTGTCATTTCTTGTCCGTG
Band lengths:
303-849
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]