RnoINT0071092 @ rn6
Intron Retention
Gene
ENSRNOG00000028627 | Hmcn1
Description
hemicentin 1 [Source:RGD Symbol;Acc:1564772]
Coordinates
chr13:67926218-67926937:-
Coord C1 exon
chr13:67926818-67926937
Coord A exon
chr13:67926353-67926817
Coord C2 exon
chr13:67926218-67926352
Length
465 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
CATGGCTCCCTCTGTTGTAGACA
3' ss Score
8.97
Exon sequences
Seq C1 exon
ATGAGGATGAATGCACAGCTGGGAACCCCTGCTCTCATACCTGCCACAATGCCATAGGAGCCTATTATTGCTCCTGTCCCAAAGGCCTCACCATAGCTGCCGATGGGAGAACCTGTCAAG
Seq A exon
GTAATATCAAAACTATATCCAATGATGAAGACAACCTTGCCTAGGAAAGACATGGTGGGCCAGTCTTCCTCCAGTATCCTCTGCTTACAGCTTTGCAACAAACAGGGATGTCCTCATTGGGTTGAGAAAGTAAGAAAGAGAACCCTGGCCAGCCATTGCCTTTGAAAGTCATTCAGAAACTCGGGATGCTGGGATAGTTCATTGAAGATCTGAGAGAACTGACTCGTTAAGTTACCTGATAGATATGTTCTCTAATCCAGTGATTGGGTCATAAATTCATCACATCATGCTGCTGTGAATTCTTTTCCACTCTAACTCATTTTAAATGACTCAACCAAAAAATTCAGTCTTTTTATTCTTTGATATTTTCAGATACCATATAGTTTCTACCCTTCGCTTCACAGCAAGTTCTTGAGTTAGTTATGTTTACAACTCACCTCGATTCCATGGCTCCCTCTGTTGTAG
Seq C2 exon
ACATTGATGAGTGTGCTTTGGGTGGACATACCTGTCATGCTGGTCAAGACTGTGACAATACCATTGGATCCTATCGCTGTGTGGTCCACTGCGGAACAGGCTTCCGGAGAACCTCTGATGGGCTGAGCTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028627:ENSRNOT00000030971:100
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:
PF146701=FXa_inhibition=WD(100=90.2),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.7),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGGATGAATGCACAGCTGG
R:
CTTGACAGCTCAGCCCATCAG
Band lengths:
254-719
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]