RnoINT0000077 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161905017-161906718:-
Coord C1 exon
chr4:161906562-161906718
Coord A exon
chr4:161905070-161906561
Coord C2 exon
chr4:161905017-161905069
Length
1492 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
CTGTCCTCTCTTTTCCTTAGTTC
3' ss Score
10.04
Exon sequences
Seq C1 exon
GTGTCTCACGTGTCCCCGGAGCAGTTGGCCTTTGTGACACTACTTGTTCAGCAAAACACTCTTATAATCTCTGAGAGAAGAGCTGTAGCAGTCGCTGCCGAGGAGAACGCCACTTTTGTGCAGACAGACACACCGGTCCACAAACCTGGAGACACGG
Seq A exon
GTAAGTCACTTTAAAAAACGCTTCCTACGAGGTGACGTGTAAAACAGAATAAAGCTTGTCTTTAACATCATTGACTGCTGCATTCTCATAATTCCTATAGTCACAGTGCCATTAGATCCGGGAGCTTGTGTATGGCTTCATAAGACTCTGTGCGTTCTTTGATTGCACACAAGTCCTACTGACGAGGCTTCACGGTACAGTGGTTGGCAGAATGCAAAGTTGTAATTGTTTGATCTAAACCAGTGATCCATTACATACCCATTTGACAAGCTCATTAATTCTCCTTTTCAAGCCAATTATTTTATTCTTTGAGTGAAGGTAATGAAAGTTTCTTTGGACTTTCAGGGAAGCAATGAGAGTCATTGTTTAAAAAAAGAAAATAGTGCCAATAACAGCAAAGACCTCACCAGCAACATTTAGGAATTCTACTGTTCTATTTTTATGTCAATTGTTATAACACAAGAAAGTCAGCCAGAGCCTTTCTGCTTTCTTATTGTTCTAAGCAGATTGTAGAGCAAAGAATACCAAGCTATAATTCAAAGACTCTTGCTTCAAAGCTTAGCTCTGTTGAGCAGTGATTGACTTTTGGCAAGAAAATTCTGATCTTTGAGATATACTTTCTTCATTTGCAAAATGAAAGGGTTAGAGATGAAACCACCTGTCCCTTGGATCCTGATTCATATTGCATATTTCTATGATTTAATAAAAAACAGAAGAACTGAACGTGGAGTTTATTTTGGCTTACACAATAGACATTTATTTCTGGCAGCTGAAGCACCCACAGATGTGGAAGTGCCGGGGCTGGTTTCCTCCAAGGATTCTCTGCTGTGCTCTGACTGATGTAACTGTGTCTGGGGCAGGGGAGTTCCTCCAAGGAGTCTCTACTGTACTCTAAACGGCAGGCTTATGCAGGCTTCTTTCCTTTTTCTTTTATAATTAATTTTAAGTCAGCCCACAAGGCAGTGCATTTCATTATGCTATTTTCCTATTTAATATTACAAAGATAATGCCTAAAGAGGGATTTTCACTTCCTGATATTCCCTTTCCTGCTCTTACTAAGATATTAGAATACGCTGTACATTTTAAAGAGCCAACATCTGTCTTTTGTAGTTCTGCTAAAATACCTTAATTTTGCTAGTACCATTTTCAAGGAAAATTATACTTATCCATTCCCACAAATGTCTTACATTTATGTCTCTATGGATAAGTCTTCACTAATTCTATTCCAAGATATCTCAGTTTTATAGGGTAAAAGCTTCTAATGTCAGTCTGGGGGATAACAAGAATCATCAAAAGAGGGATAACAAGTAGAAAAATAGATTTTCTCCAGTGGACTCCTAACCTGAAAGGCTCAGATCAGAGGTTGGGGGAAAGGAATGTGGTATCCTGTGATGGACAGGCAATTACTTAGGAATATATCTTAAAGTGATCATCCCCATAAGGTGGGGATCACAAGAAAAACCACTTTACAGCTGTCCTCTCTTTTCCTTAG
Seq C2 exon
TTCACTTTCGAGTTGTGACACTGAACACCTGGCTGAAGCCTGTTGATGAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0183514=A2M_N=PU(17.0=30.2)
A:
NA
C2:
PF0183514=A2M_N=FE(18.1=100)
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:
GTCTCACGTGTCCCCGGAG
R:
CAATTCATCAACAGGCTTCAGC
Band lengths:
208-1700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]