RnoINT0000076 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161869269-161870509:-
Coord C1 exon
chr4:161870300-161870509
Coord A exon
chr4:161869394-161870299
Coord C2 exon
chr4:161869269-161869393
Length
906 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTG
5' ss Score
6.13
3' ss Seq
CAAGATGCTATCCTTCCCAGGCT
3' ss Score
4.53
Exon sequences
Seq C1 exon
GACACCACAGTGTGCCTTCTTGCCCTGACCCGATACATGAAGTTAACCGGCTCTAACCCTCAAAACACCATCACCCTGAGCACGGAAGAGTCTGAGGAGGTTTTCCACATTAACAGAGATAACCGCCTTCTGGTACAGCACTCAAAAGTTTCCGAGGGCCACAGACGATACACGGTGGATGTGGAAGGAGACGGATGCTCGTTCACCCAG
Seq A exon
GTAGTGAAGCCTTCCTCACTGGGAGAACCGAGCCTGTCTATAAGAATCCAGACCACTGTCCAGCTATGCGTGATGTGTTCCGTCACTTTGACTCTTCCTGGTTCCTGCCTCTCTCACATTTTTCTAACAACAGCAGAAAATGCAAGATACGTTATAGAGAAGTTAATTCACATTTTTTTAAATTATTTTTAAAGTTGACATTTAGGGACCGGAGAGATGATTCTGTGGTTAAGAACACTGGCCACTCTCTAGAGGATCAGGGTTCAATTCTGAACATCCACATGGTGACCACAACTCCAGTTCCAGGAGATCTGATAGTCTCCTCTGGCCTCTGTCAGCACTGAACACCACAAAACACCCACACACATAGAATAAAATAACAAATCTTTATAAAGTAGTAAAGTTGGCATACAGAGTAATATGCTTCCTAATAGCATTTTCATGGATGTTTTATTCATCTTTCTTCCTTACTCCCATCACCCCCTTTTCCCCCTTTGTTGAAGGTCCATCCCATCAATATCCCCTTTCTGCTTTCATGCCATAAGCACCTCATTATCTCCCCAAATAAAAGCTCTTTTTTCCATTTCATGATTCTCTTTCTAATTCCCCCCACTCTCTTCCCACAACACACACACACACACACACACAGACATGGACACACACGCACGTACAAGCATATATATATACACATTAAACATGTTTAGTAATTAAATTTGTCATACTGCTGGTAGAGAGTATTCTGCCTTCATCCAATTATGTCACCACGCTGTCCCCCATAAACACTTCACTGATCCTGGTTCCCTGATGATAGATAGCTCTATAAAGCACATTGAATATGGAGTTAAAGAGATAGCAGGTTCTTCAGTGTTTACTACAGGATGATTCTCAAGATGCTATCCTTCCCAG
Seq C2 exon
GCTACCCTCAGGTACAATGTGCCCCTTCCTAAGGAGGCCTCGGGGTTTTCCCTTTCTGTGAAAACCAGAAAGAGCAACTCTTCGGATGAACTCCAGACCAAGTTTGACCTCATGGTGACCCTCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=PD(5.2=18.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCACAGTGTGCCTTCTTGC
R:
TGAGGTCAAACTTGGTCTGGAG
Band lengths:
319-1225
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]