RnoINT0000069 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161878843-161880021:-
Coord C1 exon
chr4:161879938-161880021
Coord A exon
chr4:161879020-161879937
Coord C2 exon
chr4:161878843-161879019
Length
918 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CTCTCCGTTTCTGCCTTTAGGAG
3' ss Score
11.4
Exon sequences
Seq C1 exon
GTACCAAAGCCTCAAAGCAAATAACTCTGGAATTGCCAAACGATGTAGTGGAAGGATCAGCCAGATCTTTTGTCACTTTTGTGG
Seq A exon
GTGAGTTTAACTTCTGTGTCCTAGTGGTTTTGAAATCATACTTGAGGTGGTCTCTAAAAAATCCTAACACAACAGAATGGAGATGTTTTCATGAGCTCTCAAGGGAGGGAGTGTGTGTAGACCGTCCTTTCTCTCTGTTCCCATGTGAGCTCTGAAGGCATGAAGCTTTCAGACAATGAATAAGCTTTCAGGTAATGAATACTTGCACTGGTAGGTAGTGGCAGATGCTCGGGGAACAGGAGAACCTGTTCTGACCTGTACATATGAATGCCTCTTGGAGATTATGATATGTTGTGACACTGAGAATTGACAGTAAAAAGACAGAGATGTTCCCTAAAGTCAAATGATTTGTCTATCATCAACATGCAAGCCTGTAGAAGAGGGATGGGTTATAGTTTATATTTCATCAGGCCAGTATCTCAAAACACAAATCAGAAGTAAGCCAACAAATGAGCACACTTCTATGCTTCCTCTTTGCTCTCTGCATGAGATTTTTCTGTGCTCTGGAAATGATCTTCTTATCCCCAGAGCCCCTCTAATTCTGCCCTTCAGAACCACCTCCCTCAAGAGTCCCTCTAGGAAACTTGGTTTGTTTATTTATTTTAAATTATGTATATAGGGGGCAGTATATTGACATAAGCATAGTGTCCACAAAGGCTGGAAACAATGATTTCCCCAGAAATGGAGTTAGAGGCAGTTGGGAGCCTTCCAATGTGGATGGTGGAAAATGAACTTTGGTCTGCTTCTGGAGCATCAAGGGCTCTTAGCCACTGAGTCACCTCTCCAGACTCCCATTTACCCATTTTAGAGTGAACTTTAAATAATTTCCTGTCCCCGTAGTGCCCTGTGGTTGTTACTGGTTGTTAAGGCAGCGGCTTAGCATAGTGTAAGGGCCTGACTCTCCGTTTCTGCCTTTAG
Seq C2 exon
GAGACATTCTGGGAGTCGCAATGCAGAATCTAGAGAGCCTTCTCCAGACACCCTATGGCTGCGGTGAACAGAACATTGCCCAGCTGGCAGCTGACATTTATATACTTGACTACCTCAACGCTACCAAACAGCTGACAGAAGAGGTCAGATCCAAGGCTCTTCTTCTCTTATCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:22
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:
PF105694=Thiol-ester_cl=WD(100=51.7),PF076789=A2M_comp=PU(0.4=1.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACCAAAGCCTCAAAGCAAA
R:
TAAGAGAAGAAGAGCCTTGGATCTGA
Band lengths:
254-1172
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]