RnoINT0071184 @ rn6
Intron Retention
Gene
ENSRNOG00000028627 | Hmcn1
Description
hemicentin 1 [Source:RGD Symbol;Acc:1564772]
Coordinates
chr13:67950152-67951105:-
Coord C1 exon
chr13:67950836-67951105
Coord A exon
chr13:67950323-67950835
Coord C2 exon
chr13:67950152-67950322
Length
513 bp
Sequences
Splice sites
5' ss Seq
AGGGTGCGT
5' ss Score
7.22
3' ss Seq
ACTCAATGTTTTGTTTGCAGTGC
3' ss Score
7.41
Exon sequences
Seq C1 exon
GTTCTCCCATGATCACTCTTGAGCCTGTGGAAACCATTGTGGATGCCGGTGGCAGAGTCACATTGGATTGTCAAGCAGCTGGTGAACCTCAGCCAACCATCACATGGTCCCGTCAAGGGCGCCCCATCCCCTGGGATAACCGACTTACCATGCTGCCTAATAGTTCATTATACATCGCTGCTGCTCGCAAGGAAGACACCTCTGAATATGAGTGTGTTGCCCGAAACTTGATGGGCTCTGTCCTTGTCAGAGTGCCCGTCATAGTCCAGG
Seq A exon
GTGCGTGGGAAATGGAACCCAAGACAGCTCAGATTCCCAGTCTCCTTCCAGTTTACCAACTAGTAAGATTAAAACAACACAGTGTAGAGTATTCAAATCCACACTAATCATTCAGAATCTTAAAGTAAATTTTCATTAAAAACTAAGCAAAAATGTTCAGAAATTGATGTATATTATATAGAGATGTATATATATATATACATATATATATATATATGGTAGATATATAGATTGATAGACACACACACACATGGTAAGTAGTATATAAATTTCTTCATCTCTTATTCTTCTCATAGCCACAACCACAAGAATCAGCAGAGGATCTGAGAGGGAATTTCATTGACTAAGTTATTGTCTCACTAGTAGATATTAATTTTACCCCTAAGGGAAAGTTTCCATAGCTGCTCCCCAGCAATCACACTCAGTTCTACACCCAGTAGGTAACTCCAGTGAAATTATTCTTAGAAACTTTCACTTGCAAACCTGAGACAGCACTCAATGTTTTGTTTGCAG
Seq C2 exon
TGCATGGTGGGTTTTCGTTGTGGTCTGCCTGGAGGTCCTGCAGTGTCACCTGTGGAAAAGGCATCCAAAAGAGGAGCAGGCTATGCAACAACCCTCCTCCAGCCAATGGAGGGAGGCCATGCCAAGGCTCAGAGTCAGAAGCACGACAGTGTCAAAATAAGTTGTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028627:ENSRNOT00000030971:88
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.121 A=NA C2=0.103
Domain overlap (PFAM):
C1:
PF0767911=I-set=WD(100=95.6)
A:
NA
C2:
PF0009014=TSP_1=WD(100=87.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGTGGAAACCATTGTGGA
R:
GAGGAGGGTTGTTGCATAGCC
Band lengths:
347-860
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]