RnoINT0085894 @ rn6
Intron Retention
Gene
ENSRNOG00000017019 | Lmx1b
Description
LIM homeobox transcription factor 1 beta [Source:RGD Symbol;Acc:620843]
Coordinates
chr3:12609574-12610172:-
Coord C1 exon
chr3:12610029-12610172
Coord A exon
chr3:12609732-12610028
Coord C2 exon
chr3:12609574-12609731
Length
297 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACC
5' ss Score
6.54
3' ss Seq
GTCTCTTCTGCATCCTACAGGAA
3' ss Score
9.95
Exon sequences
Seq C1 exon
AGGTTCTGTCAAGCCGCATGGAGGGCATGATGGCCTCCTACACGCCGCTGGCCCCTCCGCAGCAGCAGATCGTGGCCATGGAGCAGAGCCCCTACGGAAGCAGCGACCCCTTCCAGCAGGGCCTCACGCCGCCCCAAATGCCAG
Seq A exon
GTGACCACATGAACCCCTATGGTAAGCCGCCCCACCCCTATCTGCCCCAGCATTGCCCTCTGTCCCTGCCTAGCCAGGCAGACAGAGGCTATGACAGTCCTTGCTGCCCAGAGCCAAGGGCCCAGGGCCCAGGGCAGTCCATCCAGCGCTGCCAGCAAGCCTCCCCCTGACCGGAAGGGCCTAGCTCTAGCCAGCTGGCCTGCCCACAACCCCTGGCCACAGAGCCTGCAGGGCTGCCAGGACCCCCTGGAGCCCTGGCCGACACCCAGCTCCTGACGTCTCTTCTGCATCCTACAG
Seq C2 exon
GAAATGACTCCATTTTCCACGATATCGATAGTGATACCTCCCTCACCAGCCTCAGCGACTGCTTCCTCGGCTCTTCCGACGTGGGCTCCCTGCAGGCCCGTGTGGGGAACCCCATCGACCGGCTCTACTCCATGCAGAGCTCCTACTTTGCCTCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017019:ENSRNOT00000022953:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.959 A=NA C2=0.212
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTTCTGTCAAGCCGCATGGAG
R:
GAGGCAAAGTAGGAGCTCTGC
Band lengths:
296-593
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]