RnoINT0116945 @ rn6
Intron Retention
Gene
ENSRNOG00000021949 | Pramel7
Description
preferentially expressed antigen in melanoma-like 7 [Source:RGD Symbol;Acc:1565990]
Coordinates
chr3:75547031-75548483:-
Coord C1 exon
chr3:75548206-75548483
Coord A exon
chr3:75547613-75548205
Coord C2 exon
chr3:75547031-75547612
Length
593 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
ACATTTCTTGTTATCCACAGGAT
3' ss Score
10.6
Exon sequences
Seq C1 exon
GATACTCCACGCACACTTCTGAATCTGGCTTCACAGAGTCTGGTGAGAAATGAGGTATTGACCATCTCTGTTCTGGAATACCTACCAAGTGTGTTCTTCCCACTTCTGTTCAAGGAGGCTGCCATGCAAAGAAAAACAAAGATGATTAAGATCCTTGTGGAATACTGGCCCTACTCTTGCCTTCAGGTTGGGTTGCTGATTAATAACCCCAACTTGGAAATATTCCAGACTATACTGGATGGAGTAAACACATGGCTGAAGCGGAAATATCGCCTCAG
Seq A exon
GTAAGCTGAATACCAAGTAAGGAAACAACTTCATTTAGGAGAATGGGGTGAAAGTTCGATCAGAGGCTTTGGCTAGTGTCTTAGAGGGCTATAGGTGCCTGGAAAGCTTTTGAGTTCTTGTAGTAAGTTAAATATGAGATACAGGTTTGTATAAATGTAGCCACAGAAGAATGACCCTATCCCTGTGTCTCCAGCAGTTATTGGAAATAGGAGCTGACATGCAGGGCAGTCACCTTTAATCCCAATACTTGGGAGGCAGAGGCAGGCAAATCTCTGAGTTTGATGCCAGCCTAGTTTATATAACTACAGAGCCAGGAATATACAGAAAAACCATGTCCTGAAAAACTACAAACCAAAAGAAACAGGAGCTGAGAGAACTCCAAGACAATTGAATGGAGGGAAATAGAACAGGTATCCAGATGCAGCTCAGGTAAAGTGCCTTTGCTTGGCAACTAGAGGTTGCATTGGAGATCCAGCACTGAAAACTATGAGTGTATAGAAGATAGCAGAACAAGGGACAAATAGCATCAGAGATGATGAAAAAAAGTGTTTGGTCTCAGTTTCCCTTCTGACACATTTCTTGTTATCCACAG
Seq C2 exon
GATGCACACGCTTCAACTGGTTGACCTGAGGGATGGACACCATAGCTCCTCAGATATGCAGGTTGGAAGAGAGGGTAGAAATCATTTAGTAGAAACTATGCTTGAGGAGCAAGTAGTGGAGGGCCACTCAAGATACAGAAGGAACCAGCGTTTGAGGGTGTTCAGTGACCTTTCCTTTATGTTTCCTGTGCAAGAAGATAAACGCCAAGCACAGTTGTTGCAGTGGGCAAAGAAGAGAAGGAATTTCCTATATCTGTGCTGTGAGAAGTTGGAGATCGGAGCAATGGAAGTGTCCAAAGTCAGGGATTCGTTAAAATTGTTAGAGCCAGAGTTCGTCAAGGAATTGGAACTGAATACAGTGGCGAATCTGTCCAAATTGGAAAAATTTGTACCTTGCATTAGCAAGATGATAAATCTTCAGAAGCTCATGCTAGTACGCATCTTTCAACCAAGAATTCACACAACCAAGGAGAAGGAGATCATCACCAAGATCATTTTTCTATTCTCCAAATTCAGCTGTCTCCAGCATCTCACTATTGATGATGTCTATTTTCTCACAGGCCACATGAATGAGTTGTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021949:ENSRNOT00000039101:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.026
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCACACTTCTGAATCTGGCT
R:
ACCCTCTCTTCCAACCTGCAT
Band lengths:
345-938
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]