RnoINT0000057 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161894884-161896185:-
Coord C1 exon
chr4:161896027-161896185
Coord A exon
chr4:161895149-161896026
Coord C2 exon
chr4:161894884-161895148
Length
878 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGA
5' ss Score
6.91
3' ss Seq
CTTTGCTTCTGTCCTGCCAGGCC
3' ss Score
10.1
Exon sequences
Seq C1 exon
CTTAAATTTTCTGGCCCCAATAACACACCGATGGTGAACAAGCTTTTGCAACTGGAGCTCGATGGCAAACCTCTAGGGAATTACACCACAGATGAGAAGGGGGAAGCTCAATTTTCCATTAACACTTCAGAGATATTCGAGGCACAGATGAGCTTAAAA
Seq A exon
GTAAGACATCCAAGGGCTGGCAGAGACCGTCAAGAATTCCACTGTAGCCCCAATGCTAGGGACCTGGAACATAGAAGGCTCTTAGATAGTAGCATCTTTTCTGTGACTTGCTTGCCCATTCAGTACTCAGTGAGAGCAGAGTTCAGAAGATGAGATGCTACCACTCTCTCACAGCGACTATTGTGACCAGTATGTCTTCTGTGGAAGTAGGACGTAGAATGTAAGAAAATCGGCCTTCTCCCTTACATCACCCTGTGCATAGAGATTTCTTTTCTGAGCCTTCCACAGAAGTTCGCAGTTCAACAGTTTGTCATGGCTTGCGTGCAGGTGAAGGATACAGAACTTAACTCTAATTCTCTGACTGTAATTAAAAGCAAAAATCCAAAGTATTTTTGGTCATTAAGTGTCCTTGTAGCACTCAGGACGCTGAGACAGGAGGATCTTGAGTTGCAGGTCATACTGGGATACATAGCCAATCACCCTCCTCACACACACACATACCCCAGCTCACACACACAGAATAAAAAAACATAACAATTCACTCTTAGTCCAGTCAGACAGTCCCATAACAAGGTCACTGTGAATGTATATATATACATATATATATATATATGAAAGAGAGAATGATATTATTATCTCACTTTGTGCGAGTCAGTTCTCTCTTTCCCACCACAATGGTCCTGAGAATCAAACTTGGGTGGTGAGGCTTGGTGGTAAGCGCCCCCACATGGTGAGCTGCCCCACCAGCCTCCGCCATAACAGCTGTGAGCTAGGTTCCTTCCTGGTTGGAAGAGATGACCAGTCTTGTGTTAGGTAGTAATCCCTGTCTTAGAGGTGCCCATTGTTCTAAAGCCTTTCCTTTGCTTCTGTCCTGCCAG
Seq C2 exon
GCCACATATGTCCGACCTAGAAGCTGCCATCGTTCCAGCTGGTTGGACCCTGAGTATTTGGACGCCTACTTCTCAGCCTCACGCTTTTACTCCCAGACCAGCAGCTTCATGAAGATCATTCTCGAGCCAAAGCCGCTTCCGTGCGACCAAGAGAAGATGGTCTCAGTGCTTTACTCCCTAAACCCCGAGGTTTACAAGGAGGCCTCAAAAGTGACCTTCTTTTATTTGGTAAGCTTCAGCTGGTGGATCTGTCTAATCCGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:11
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:
NO
A:
NA
C2:
PF077039=A2M_N_2=PU(35.4=58.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCGATGGCAAACCTCTAGG
R:
GACAGATCCACCAGCTGAAGC
Band lengths:
356-1234
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]