RnoINT0071106 @ rn6
Intron Retention
Gene
ENSRNOG00000028627 | Hmcn1
Description
hemicentin 1 [Source:RGD Symbol;Acc:1564772]
Coordinates
chr13:68123289-68124629:-
Coord C1 exon
chr13:68124534-68124629
Coord A exon
chr13:68123357-68124533
Coord C2 exon
chr13:68123289-68123356
Length
1177 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
GTGGTCTTTCTCTGATGTAGTTG
3' ss Score
6.97
Exon sequences
Seq C1 exon
ATTTATGGGCAAGTGATAAAGGAACGTACATCTGTGAAGCAGAAAACCAGTTTGGAAAAATACAGTCGCAGACAACAGTAACAGTGACAGGACTTG
Seq A exon
GTAAGATTAAGTAATTTTCTGGGGGTGACGTTCTCCACCTCAGACCTCTTGGGTGATGTCGTCCTTTACAGTGACAATTTCCACTGATTCTAAAGCCAGGTCGAGTCTTGGGTTCCTCAGCCATATTCCATACACTGTTAGAACTATAGATGATTTCGGGAGCACCTAAGCCTCCCCGTCTTCTATTTGATTATTGGTCAGTTTAAGTAGGTTTAAGCCTAAATGTGAAAACACACACACACACACACACACACACACACACACACACACACACACACACACACACGTGAACAAATTATGCTTTTGATGGCCTGTCTTATGTCACTTTAACCCACAGAGGATTATATTTATGAGCTGCAAAGTAAAAACAGAATATAACTTATTTCCAAGTTCTGGGAACCTGATTGCCTCAGAATATTTTACCGGTAGACATGTCTGACTGGTGGAGCTGATCGTTTATTCTCATCCTGAATTTTATTCCTCCGATTACTCTTTGGAATTTTTTTCTCAGTACTTCATAGGTCAAACTGTTACAGCCTTACGCATTAAATGTGACCTTAAGCACTTCGATGCCTATCATTAATGGTGGTATAAATCTCACTATTTTCTGTATGTATGTCTCTTCATTGTTCTGTCTGTAACCTACATTTTAAGGTAATATCTTTTAAGGAATTTGGTCTCATTTGTGATATATTTGCTTTTGTCAGTTTCTAGGAAAGAACAGGTAAACCACACTCTTCTCGCCTCTAGTCTCTTAGCAAACTCACCCCTGCTTACTTTGCTTGTGCTGTTCCCACGGGTCCTGATGATTCCTACCATCCCTAGTCTATTCTGTTTCTGGCTATTTCCCTGAGAGTGGGTTCTGATAGCTTCAGGTTTCCACTCACAAGCACCCTCACACACTTCTCCGTTCTAATGTATAATGCTGTGAGCATCTGACCCTGACATTGTTCTGTGGAGGTTTCCTCTTTCCTCTTGATATTTCTGCAGGACCGCCTGTCCTCCTACCAGTCTTCCTTCAATGTGCTATGTTCCACATTCAAGCTTATTTCCGTTCTATTTTAAAGTCCTGTTCCTGAAAACTCAGTATTAAACAACATAATTTGTAGTCAACCTTCTTTACAAAAACATCCCCCTCCCAACCTTCGTGAAGCTGAGTGGTCTTTCTCTGATGTAG
Seq C2 exon
TTGCCCCACTTATTGGAATCAGCCCTTCCAAAGCCAGTGTGATTGAAGGACAGCCAACTACCTTGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028627:ENSRNOT00000030971:17
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:
PF0767911=I-set=PD(30.4=84.8)
A:
NA
C2:
PF0767911=I-set=PU(22.7=87.0)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]