RnoINT0054402 @ rn6
Intron Retention
Gene
ENSRNOG00000010653 | Elmsan1
Description
ELM2 and Myb/SANT domain containing 1 [Source:RGD Symbol;Acc:1306119]
Coordinates
chr6:107640375-107642175:-
Coord C1 exon
chr6:107642087-107642175
Coord A exon
chr6:107640525-107642086
Coord C2 exon
chr6:107640375-107640524
Length
1562 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CCCTTCTGGCTTTAATTCAGATC
3' ss Score
7.94
Exon sequences
Seq C1 exon
GCTCTGACGAGTGGAAGATGGCTGAGAGGAAGCTGTTCAACAAGGGCATTGCCATCTATAAGAAAGATTTCTTCCTGGTGCAGAAACTG
Seq A exon
GTGAGCAAAAACAAGAGGATCCTGTGGTCACTCAGCAAGTGTCCAGATGGCAGGGTGCTTGCCCAGTGTGCCTGAGATTGGGCCCCATCGCTGTGGTTAGATCACTGCTATTAAAGTAGCTTCAGAGATAGCTCGATGAACCGCATCTGCACAAAGGATCTTCCCCTGCCTTCCGAGCTCTCAGGACCTTAGGCCTAGAGATGGCTGAACCTGGTGGGGAAACAGGGGAGGCAAGAGAAAACAGTCCTTATATGGAGTGTATTGCCCAAACCAAACCCAATGGTCAAATAGATCTTTGAAACAGACGAGCTGGATGCCCTCATTGGAGAGGACCATGGAGATGGGCTGTGCTTCTAGTATCACACATCACCTCACATACTCAGCACACATGGGAAAATGGAAATTAGGAAAGTGGGGGGACTAGGATGTGCAGCCCTTTGGTGGCAGTTAGAAGCCAGGAAAGGGCCTCCTGCTTCCTCTTTGGGCTTTCCCTACATCCTCTCGGACATGATGACTGTGACATTTCTCTTCCTTACTTGGCACTGTTCCCTGGAGAGGAGTGGATTTGTCCTCCTGATTGGTGAAGGGGGTTTGCACTGCTGTATTGGGGCTGGCTTTGGATGAGGAAGATGCCCGGATACTTTAGTTTGAAATTCCCAAATGTCTAGAAAATGGAGAAGAGTAAGTCCATTAATTAATGCCTTGCCGAGGTTTACCAGTTTTACCATGTCTTGTTTTCTTCTCTTTCCCTGTGTGCATCTAAACACAGACCCAGAGACACACAGAGCTATCTCTCCCCCGCCCCCTCAGTTTCACCAAATCATTTAATGTAAGCTACAGCTGAGCCTGGATGTATAGGCCTGTAATCGTAGCTATTTGGGAATATGATGTAGGAGGATTACAAGTTCAAAGCCAGCCTGGACTACTAAAGTAAGTTCAAGGCCAGCCTAGATAATCAGGGGTAGGATTAGAAGTACTATTTAATGGTAGAGCATTCGCCTAGCCATGTGCTAGGCCACACACTCAATGCTAACACAGGGGCAGGAGGATTATTTTCAAATAAAACTTCCCTAAGCATTGGCAAGCAATTTGAAGGCACATTGAGAGGCCTGTGGAGATGGTCTAGACATCACCTCACTTAATACATATCAAAAAGCAGAACGATGAGCCCCCTTTTCACCTGGGGGCTCCAGGAGGAGCCAGGTGAACTTCCAAGAAGCTTGAGGGATAAGAATGAGTTCAGTTACTCTGCTAGGGTACAGATTCCGACGCAGCCAGGGCTCCTGAGCCCCTGCTGGCCCAGTGCAGCCTCTCATGTTGGGACTCTCATAGGTCACGGTCCTCTCTAGTCCACAGTCAAATCTACCCAGAAATTCTGGTCCTTCGTTGCAATGGTGCAGAAGCCTCCATTAATTGCATTGGCCTGAGATTCGTTGTGGAGCAGGCATTGAGAATTTGGGGTTTGGGACTTAGTTTTTTGCCTAAGGCTAAAGGGAACCAGCATCGATGAGAAAGGTGAACCACACCAGCTCCCTCTGACCTCCCTTCTGGCTTTAATTCAG
Seq C2 exon
ATCCAGACCAAGACTGTGGCTCAGTGCGTGGAGTTCTACTACACCTACAAGAAACAGGTGAAAATTGGCCGCAACGGGACACTCACCTTTGGTGACCTGGATACCGGTGCTGAGAAGTCCGGCCAAGAGGAAGTCGAGGTGGACGTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010653:ENSRNOT00000014158:9
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=0.400
Domain overlap (PFAM):
C1:
PF0024926=Myb_DNA-binding=PU(60.9=93.3)
A:
NA
C2:
PF0024926=Myb_DNA-binding=PD(34.8=32.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTGACGAGTGGAAGATGG
R:
TTAACGTCCACCTCGACTTCCT
Band lengths:
238-1800
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]