RnoINT0088642 @ rn6
Intron Retention
Gene
ENSRNOG00000012559 | Man1b1
Description
mannosidase, alpha, class 1B, member 1 [Source:RGD Symbol;Acc:1563595]
Coordinates
chr3:2566041-2566453:+
Coord C1 exon
chr3:2566041-2566238
Coord A exon
chr3:2566239-2566321
Coord C2 exon
chr3:2566322-2566453
Length
83 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGC
5' ss Score
6.3
3' ss Seq
GCCTCTTGCTCTGCCCCTAGCCG
3' ss Score
9.01
Exon sequences
Seq C1 exon
GACCACTTGGTGTGCTTCCTGCCAGGGACGCTGGCCTTGGGCGTCCACCATGGCCTACCGGCTGACCACATGGATCTGGCTCGGGCACTCATGGAGACCTGCTACCAGATGAACCAACAGATGGAGACAGGTCTGAGCCCTGAGATTGCACATTTCAACATGTACCCTCGAGCAGATCATAAAGACGTGGAGGTCAAG
Seq A exon
GTGTGCCTGGGCATGGGCTGGACTTGGGCAAGGGTGGTGCCAGCAGGGGTGGATACTCCCTGAGCCTCTTGCTCTGCCCCTAG
Seq C2 exon
CCGGCTGATAGGCACAACCTGCTGCGGCCGGAGACCGTGGAAAGCCTGTTCTATCTGTACCGCGTCACAAAAGACCGCAAGTACCAAGACTGGGGCTGGGAAATCCTGCAGAGCTTCAATAAGTACACACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012559:ENSRNOT00000016846:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF0153215=Glyco_hydro_47=FE(14.8=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(9.8=100)
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:
GTCTGAGCCCTGAGATTGCAC
R:
GATTTCCCAGCCCCAGTCTTG
Band lengths:
173-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]