RnoINT0054393 @ rn6
Intron Retention
Gene
ENSRNOG00000010653 | Elmsan1
Description
ELM2 and Myb/SANT domain containing 1 [Source:RGD Symbol;Acc:1306119]
Coordinates
chr6:107637447-107639262:-
Coord C1 exon
chr6:107639050-107639262
Coord A exon
chr6:107637644-107639049
Coord C2 exon
chr6:107637447-107637643
Length
1406 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGT
5' ss Score
11.37
3' ss Seq
TGTTTGTCACTTGTCTCCAGGCC
3' ss Score
8.6
Exon sequences
Seq C1 exon
ACTTCTCAGAAGTTCCCAAGGGTGCTTCCTCCCAGAAGAGAGTCCCCAAGTGAAGAGAGGCTGGAACCCAAGAGGGAAATGAAAGAACCCAAGAAGGAGGGGGAGGAGGAGGTACCAGACACCCAGGAAAAGGGAGAGCAGGAGGAGGGGCGAGAGCGCAGCCGTCGGGCCGCGGCTGTCAAAGCTACACAGACACTACAGCCCACTGAGGCG
Seq A exon
GTAAGTGACCTCCACCTTTCCCCCCAAGGGCAGGGCAGGAAGACAGCGTGAGGCCTGGGGTGTGGGTGGGAGGACAGCAAGACCACGGTGACCCTCATGGTGACAGACCAAGGTACTTTATGCTGGTAACTTACTTGGGTCTCAACCCTGTGTGGTCAGGGCTGTTATGAGTCTCATTTTACAGCCAAGCAAACTGGTGGTTGAAGGTTATGTAGCTTGTCGACAGCCTGATTCAGTGTGCAGCTTATCTTCCCATTACGAAAAATGTATTCACATGTAATTATATGTATATACGTGCGTGGGCATACTGTATAAATGTTTGTCTGAGATTCAGAGGAACAAGGCCTTGTAGAAGAAAACCCAGTGGTTGCGCGGCACAGGGGAAGCACTCCGAAGCTGAAGCTCACTCGTGGCTCCCCTAGAACACGTGCTTGACAAGAGTGTCCGGAGTAGAGCTGAGACTGTGAACCCCAATAATGGCCCTTTCTGTTCTTGGCTGAGTGCTTCATGTCCGCTATTTTACCAACCCCTCACAGTAGCCGCACAGCGCTCCCTCCCACTCAGCAGATGAGGGAAATCAGGGTCGGAGATGCTGTTTGACTTAGTTGAAGGTATACCCCAGGTCTTTGTGCTGTCTCCTTCACGGACTGAGCGAGGCATCTCATTTTAGCTTCCCTGTCAGAAGAACTCTCCCTGGAAGTGGGAGAGATGGAATGCGTTTGCGCACTCTACCTGCAGAACGCCAGTCAGCCAAACACAGCTGCCTGCTTCCTGAGCGTCACTGCTGGCCTGCAGGAGCCGTGTGGTGTCTGCTGTCCAGTTCTGCTGTCTTTGTGGACACTTTGAGGGGTGACCCAGGGCACATTTACCACTTCTGATGGCCATCTGGGGTTTCTGGCCTGAGACCAAAGCAGATACCTTGGGGTGTGTGTACACCATGGCTCCTCTACTTTGATACGTGTTCCCTCTCTTCTTTTTCCCCACTTTCTCAGCAGGTGACCATCACATCTGTCCCTTTCATTACAATGGGAGCTTTCTGGGGACAGGGCTGACTTCCTTACCACCTGGTACATCATGTGAACACGTCTCTCTGGCATTGAGATATGATTGGACTAAATGTCAAAAACAAAACAAAACAAACAAAAATCCAACAACAACAACACCCCTCCCCCCTGAGCAAAGTCAGAAGTGTTAATGGCTTTAACTGCCAGCACGTGGCACAGAAGTATGTGTCACCACTTTGGGATAGGGCCAGCTGCAGTTGCCTCCTGAAGCTGCCAAGTGGTCCTATCCCTGACTATTTGGCAGGAATGTGTGACTTTTTAGGGCCCCCTGTTCCCTGAAATGCCAGAATTCTGGCTCCACACTTGCCTCTAAAACACACCCTGTTTGTCACTTGTCTCCAG
Seq C2 exon
GCCAATGATGTCCTCATTCTCCGGAGCCACGAACCCAATGCCCCGGGGTCTGCCAGTGTTCAGACCTCAGAGAAGCCAAGGGAAGGGCCGGGGAAGTCACGAAGGGCTCTGCCTTTCACAGAGAAGAAGAAAAAACCGGAGGCATTTAATAAAACCCAAAACCAGGAGAACACTTTCCCTTGTAAAAAGTGTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010653:ENSRNOT00000014158:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.894
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGAAGAGAGTCCCCAAGT
R:
AGTGTTCTCCTGGTTTTGGGT
Band lengths:
357-1763
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]