RnoINT0000058 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161893144-161895148:-
Coord C1 exon
chr4:161894884-161895148
Coord A exon
chr4:161893308-161894883
Coord C2 exon
chr4:161893144-161893307
Length
1576 bp
Sequences
Splice sites
5' ss Seq
CAGCACAGT
5' ss Score
-7.51
3' ss Seq
CCAGGACTGTGTCATCTGTGACC
3' ss Score
-13
Exon sequences
Seq C1 exon
GCCACATATGTCCGACCTAGAAGCTGCCATCGTTCCAGCTGGTTGGACCCTGAGTATTTGGACGCCTACTTCTCAGCCTCACGCTTTTACTCCCAGACCAGCAGCTTCATGAAGATCATTCTCGAGCCAAAGCCGCTTCCGTGCGACCAAGAGAAGATGGTCTCAGTGCTTTACTCCCTAAACCCCGAGGTTTACAAGGAGGCCTCAAAAGTGACCTTCTTTTATTTGGTAAGCTTCAGCTGGTGGATCTGTCTAATCCGCACAG
Seq A exon
CACAGTTTAGGGGATGTCACCTGTCAGACCTTGTCAATCTAAGTGAGCTCCACCTACCCACTTTGCTGTTGAGTACCCCTGGCTCCATGAAGAACACGGGAACATGCTTGCAAAATGATCCCAGCCAATCTGAGCTCCCCTTAGACTGAGGTATTTGCTTCTTCAGTCGTTCCGTTGTACTTCACATCAGATGTTTATGACCGTGTGTGAAGGGTTAAGTAACATAGAAAGCTCAAAAGGATGAGTAGAAAAGGAATCTGTTCTCATTCCCTCTCGCAGAGGCTCCCGGGAGAGTGAAAACAGACTTGGAAATTAAGGCATTCCTACTTCCACCCCTCCACTCTCTCCTAGTCCCCAAGTACACGTGTCCTCCTTGAACACATTGTCCAGACGCTCTAAGCTCTGGTGCTCTCAGCTGTATATTCCTAACTGGAAACATTAGTGGGATCATTTAGACTCACCAAAATGGAACAGTAAGTAGGCCTGAGGCCCTGACAGAGTTCCATGCACGTGGAGTCATCTCGTCGGCCTTACGGGCATTAACAGCATGAACCAAATGGGTAGATAACAGGCAGGCGAAGTCGCTACCTTTCACATGCATTAGACGGCTTCACAGAGCTTTGAGTTTTTTCCCTGTTCTGGCCCAATATGTGTGAATCCGCATAATATTCGTTTGTGGAAGCTACCTTGTTACAGGACAGAATGGGCACCAGATTAGCCTGTGAGGACATGGTATGATGTAAGTTCGATGCTCACACTGGGTCTTCTCTGTCTGGCACAGGTGATGGTGAGAGGAAGCATCCTCCTCAGTGGACAGACAGAAGTCAAAGTTCAAGGTGGATACGATGCACTTGCTTTGGAATACATGCCTTATCTCTGTGCTTTCTCCAAGTTAGGATGAGCCCTTGTTACCACAAGAAGTTGGAGGGCAGTAGGTAGCATGGCCTGAGGGAACACTGAGTAGTTTGAATTGCTACCTTTCTATCACTGCTCTAGTTCGCTTTCTATCACTGTGATAAACCCTAGCCAAAAGCAACTTCAGGAAAAAAGGATTTATTCCATCTTGTACTTCAGGTCACGGAGGGAAGTCGGGAGCAGGAATTCAAGGCAGGAACCTGGAGGCAGGAACTGGAGCAGAAACCGTGGAGGAGCACTGCTAACTGGCTTGCTCTCGATGGCTTGCCCAGCTTGCTTTCTTATATGCCCTAAGTCCTCCTGTCCAGGAGTGGCACAACCCACAGACAAGGCTGCATTCATCATTAGTCAAGAAAAGGCCCCGATAGACATGCCTGTGGGCCAATTAGATGAAGGCAGTTCCATAATTGAAGTTTCCTCTTCCCAGCTGACTCTAGTTGGTGTCAAGTTGACAAAACTTACCTGGACCCATCAGTTAATCCTGTGAATCATGGAAAAGTGATGTCTAAGGCGGTCCTACGTAGTATCTTCATCTGTGTATAAGTCCCCACTTCGCCTGCGTCTGAGCAAGGCCCGGCTCTATTTTTCAATCCACATGCCATTTCCCTTCATCTAAGCCAACCCAGAGAGACAATCGAGCGCCAGGACTGTGTCATCTGTG
Seq C2 exon
ACCTGCCTGTTTCCACAGCCCAGAATGGAAACTTCTCCTTCCCAATCATCGTCACTGCTGATCTGGCGCCAGCAGCTGACCTGTTTGTCTACACCCTCCACCCCAGCGGGGAAATCGTTGCAGATAGTGTCAAGCTCCAGACTGAGAAGTGCTTTAAAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:12
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=PU(35.4=58.4)
A:
NA
C2:
PF077039=A2M_N_2=FE(36.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCTGAGTATTTGGACGCCT
R:
TATCTGCAACGATTTCCCCGC
Band lengths:
345-1921
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]