RnoINT0113447 @ rn6
Intron Retention
Gene
ENSRNOG00000028521 | Plekhm1
Description
pleckstrin homology and RUN domain containing M1 [Source:RGD Symbol;Acc:1308010]
Coordinates
chr10:91451865-91455458:-
Coord C1 exon
chr10:91455301-91455458
Coord A exon
chr10:91454559-91455300
Coord C2 exon
chr10:91451865-91454558
Length
742 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TGCCCATGCTCTCTTCTCAGGTG
3' ss Score
11.39
Exon sequences
Seq C1 exon
ATTGCAGAGGGGGTGTATGAAGGATTCCTCAAAGCCCTGATTGAATTCGCCTCCCAGCATGTCTACCACTGTGACCTGTGCACCCAGCGAGGCTTCATCTGCCAGATCTGCCACCACCAGGACATCATCTTTCCCTTTGAGTTTGACACCACAGTCAG
Seq A exon
GTATGAGGGGTGCACAGCCAGCTACCCCACAACCACGGCCTGAGCAGCATCCCTGCTTACCCCTCACCCTGTTGTGCAGGAGCATACTGAACATCCGCGGCTGTCTCTCAGCCCCTTACCTCCCACCCCATTACCTTAGAGAAGGGATGGCTGCCGCCTCTTGAAGTGGGATGTCTTAACTCAGTCAACAGATGGGTTAAGGAGCTGACAGAGTATGGCCCTAGAGCACTGACATAAGGCTTAGCTAAGTGGGTATTAGACATTATTAGAAGCTCCGGTCTTCCCTCACACCAGGTAGGAGTGAAAGGCTGAGCTAGGAGATAATCCACTCACCTTCAGTAGATAAACCAGCCACTGTCAGCTCTGGGCCTGGGCTCTTGTTTAAACTGCTCTAAAAAGAGTCAAGAAGTCGGGGTTGGGGATTTAGCTCAGTGGCAGAGCGCTTGCCTAGGAAGCGGAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAAAAAAAAGAAGTCATGTAAGCTGTCAATCAGCACTGCAAAGAGTAACATGGGACATGTCCTTGGGCATGGGGTTCACTTGCGGGTTCAGTGTCTGAAGTGCTTTCCAAGAGAATTGGAAGGCAACACATGTGGGTGCCAGCCGCCAGCAGAACGCAGCCTCTCTGGGTTCTGCCCATGGCCCCAGACATATCTAGATGACTGGCACCAGCAATGCCCATGCTCTCTTCTCAG
Seq C2 exon
GTGTGCTGAATGCAGAACTGTCTTCCATCAGAGCTGCCAGGCTGTGGTGAGGAAGGGCTGTCCCCGCTGTGCCCGCCGGCGCAAGTACCAGGAACAGAACACTGTCAGTTAGCCCTGCTGTCCTGACCTTCCAAGGCCGTCCAGCTGGTTTGTCATCGGCCTAGGCCTCTCCTCCCTGTAAGGAAGACTCTCTGGTGTGCCCAGAGCTCCAGCCTACAGAGAAGGCACAGGAAGTCGCAGTGATGCCTGTGGCCCCTCACTACCCTTGTGCTCCAGGAGAAGGAGATACACCAGGCGCCTCTCCACAGGGCCTGCTTACCCAGCTGTCATGGCACCTCCGTTAGGGCTGTTCATACACTGTTGAAACGAAGCTTGGTGAGCATGTGTAAACCATGCTCCTGAGTACAAGGTCTAGTTTTTTTAAGGTGGGTTTTCCCCCCTTCGTATTTAAACAGAAAATATTTTTTTATTCTTGACCTACCCAAATCACCCAAGAAATAGACTCCTTCACCCGAGCAGATGGGTAAGAGGAAGCCCAGCCTAGAGGCAGGCATGGAGCCGGGTGGAAGGGTGCCTTTCCTTTGCCCTTTCTGGCACATACTGCCAAGAGCGCAAATGCCATGTGCCAAATGGCCTGTCGTTGTAAGGCTGGTTGGTTTCAGCAACCACCTTCCCTCCCTTGTCATGCTCTCCCAGAAAGCAGTCCCTCCCTCTCAGAGCCCCTGGCTCCTTTCTGGCCTGGGAGTACAGCACAGCAGGAGCAGGGGAATGACCAGCACCAGCACTGTCAGCACTTTGAACCTTCCTTTCTCAGGAAGGCCACACCCTTGCCCACCTCATCCCCGTGCCCTCCTTAGTGCTGCAGGGTAGAGTAGGCTGGAAGCCAGAGAGCCCCAAGCTCCATCTGTGAAGAGGAGGCGCCATCCTTCAGCTACAGAGATAGGGATTTGCCCAGAAGCTGCCCTGCAGAGCTCCATCAGCCTAGTCTCAAAGCTTGAGTTCAGAATGTTCCTTGAGTTTTCACCTAGTCCAGCAGGACACTGCAGCACCCAAATGACTTCCTGGAAGTGGGGTTGCCCTTGAGAGGCTCTTGGGTCTGATGGCCACATCCTGGAATTGTTTTCAAGTAGCCTTGAGGCATGTAGGGAGTAGGGATGCGCTCTGCTACCCTCACCTCTCCTGAACCCCCACCCCACCCCGTCTGGCCATCCCAGAGCAACCAGCTCAGAGCCAGATGGAATGGAGGACCTCCCTGGAAATGACCTGTCATGTCTAGAGAGGAGGTGTCCCCACCCTCACGGAGGTGCATGAGCTGAGTCACCTGAAGCCTGACGAGTTGTGCAATAAAACAGGAGGCAGAGGCTGCCACACAGTTAGTTCATCTGTCCCCATCATGGAAGACAGCACTCACCAGTGGCTGAAACACCAAAGCCTCCAGAGCCACCCAGTGTATCCATGTCTGCGCCCCCTCCCCCAAGTAGCATTAACACATCCCCCAAACTACAGCCCCATCAGAGCCTCCCTGGTTTTGGGTCCTGAATGGCAGGAGTCTGTGGCCTGTCCCATGAGAGTGTATTACAGAACTTGCCTAGGAGGTAGAGTCCTCCCGCTACCTGGACTGTGAGCATTAGAGCTGTCTCTTGCCCCTTTACTAAGCTACTGATGTGCTCAAGTTCGAGGCTTGCCCCCACCAGAAGAGAGCTCACGTGAACCTCTGCAGTGCCCACACTATTGAAAAAAAACGCTATTTTATGCAATATTCTGACAAGTGGGCCTTGGCAATGTAGAGAAGAAGCTGCTGCTGTGTGTGTGGTATTTGAATGATTTTGCAGTAAAGACCTGGTCTTTCTAATCAGTCTTGTTTCTGAGTCTCAATCCTGTGGCTCCTGGGGAAACACCAACGGCTCCCCTTAATCCTATGCACTGAGCACTTCAGGGACCATGGAGCACACTTGCCCGACCAACCAGCCAGGGAGAAGAGGTAAGTGAGAGAATTTAGGTTGCCCTGATGGAGGTGGGAGACTTTCAGATTTACCCATCAGCTGTAACAACTCACTAGCTTTCTGCCCTAAATTCCCGGAAACAGATCACACACACATACATAACCTGTAAAAGCAGGAATCTGGGCATGGAGAGAGGCAAGCAGGGGAAACAGGTCCCGGCTCCTAGATTCATAGATTAAAGATTCAAGAGACCCATCTGCTGCTAGCCTTCCCCGGGGGCTCCAGAAGAAGCCCCCACCCCACCCCCACTGCCTGTGTTAGGACAAAAGAAGGAAACAGACGAATTCCTAGGGAAACCAGGTTGCAGGAAAATGGGACAGAAAAAGACAACATCCAGGACTTCATTTCCTGACCTTGAGGACCTTCAGCCACTGAGTGGGGTACTCCTTGGCCATCTTTGAGCCAGGTTCTCCAGGGGCGTAGGCTCAGAGAAAAAGAAGAGGAACTGGATTTGGAGGTTGGGGGTGGCAGGCCCAGGAGAGGCGTCTGACACTTGCGCTGATGCTGCTGTCTTTGGTTCAGTCTTTCCACCTTCTGCACAGTGCCTCTGAGGGCAGTTTCCCCTTTCTCCCTTCTGTCTAGAGGGGGGATGGGAAAACTGGAGTTCTCATCCCCAGAAAGTGCCTCCTATAATGAAAATAACAATAAAATACATGTGCTCACCACCGTTGTGTTTAGTGTATATTTCCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028521:ENSRNOT00000037147:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139011=DUF4206=FE(25.4=100)
A:
NA
C2:
PF139011=DUF4206=PD(14.6=78.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTGAATTCGCCTCCCAGCA
R:
CCTTCTCTGTAGGCTGGAGCT
Band lengths:
345-1087
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]