Special

MmuINT0121779 @ mm9

Intron Retention

Gene
ENSMUSG00000022565 | Plec
Description
plectin [Source:MGI Symbol;Acc:MGI:1277961]
Coordinates
chr15:76013521-76013875:-
Coord C1 exon
chr15:76013792-76013875
Coord A exon
chr15:76013626-76013791
Coord C2 exon
chr15:76013521-76013625
Length
166 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ACCACAGTGTGTGTCTATAGGAC
3' ss Score
7.52
Exon sequences
Seq C1 exon
GCCCTGCTGGAGGAGATTGAGCGTCATGGTGAGAAGGTTGAGGAGTGCCAGAAGTTTGCTAAGCAGTACATCAATGCAATCAAG
Seq A exon
GTGAGGTCTCCCAGCTGGCAGCTCGAAAACTCAAAATGGGGGGGCCACGCTTGCGTGACTGTCCCAAGCCTGAACTGTACCAAAGAAGGCCTGTGAGGCAGCCTGGGGGTCGGGCCCAGGCAACCAGAGACTAGAGCAGGTAGCTGACCACAGTGTGTGTCTATAG
Seq C2 exon
GACTATGAGCTCCAGCTGATCACGTACAAGGCTCAGCTTGAACCCGTGGCCTCCCCTGCCAAGAAGCCCAAGGTTCAGTCTGGATCGGAGAGCGTCATCCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022565-Plec:NM_001164203:30
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.250
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0043516=Spectrin=FE(30.7=100)

							
A:
NA

							
C2:
PF0043516=Spectrin=PD(14.8=37.1)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000073124





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000023226, ENSMUSP00000057158, ENSMUSP00000071765, ENSMUSP00000072478, ENSMUSP00000073124f1277A, ENSMUSP00000074383, ENSMUSP00000075693, ENSMUSP00000075772, ENSMUSP00000079668, ENSMUSP00000087037, ENSMUSP00000126068, ENSMUSP00000126526, ENSMUSP00000127261, ENSMUSP00000129543, ENSMUSP00000130048
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr8:143927082-143927251 
ALTERNATIVE
HsaINT0127083
(PLEC)
Human
(hg19)
chr8:145001250-145001419 
ALTERNATIVE
HsaINT0127083
(PLEC)
Rat
(rn6)
chr7:117242513-117242683 
LOW PSI
RnoINT0113117
(Plec)
Cow
(bosTau6)
chr14:2077301-2077453 
LOW PSI
BtaINT0113450
(PLEC)
Chicken
(galGal4)
chr23:5336728-5336910 
LOW PSI
GgaINT0137855
([1])
Chicken
(galGal3)
chr23:5651904-5652086 
LOW PSI
GgaINT0137855
(MACF1)
Zebrafish
(danRer10)
chr19:22839818-22839901 
LOW PSI
DreINT0115629
(pleca)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CCCTGCTGGAGGAGATTGAGC

				
R: 
CCTGGATGACGCTCTCCGATC

				
Band lengths: 
186-352

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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