Special

MmuINT0121793 @ mm9

Intron Retention

Gene
ENSMUSG00000022565 | Plec
Description
plectin [Source:MGI Symbol;Acc:MGI:1277961]
Coordinates
chr15:76023840-76024860:-
Coord C1 exon
chr15:76024771-76024860
Coord A exon
chr15:76023918-76024770
Coord C2 exon
chr15:76023840-76023917
Length
853 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
TGAGCCTTGCCTCCTCCTAGCCC
3' ss Score
6.13
Exon sequences
Seq C1 exon
GCTCAGAGGCACATCAGTGACCTGTACGAAGACCTCCGTGATGGCCACAACCTCATCTCCCTGCTGGAAGTCCTCTCAGGAGACAGCCTG
Seq A exon
GTATGTGTGTCTGTCTCTGCCTGCCTGCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTGAGGCCTTCCCCTTCGACCCACTCAGTGTCCAGCTCCGTCTCTCACCTTCTCCAGCCTTAACTGCTCCTTCCTGGCCAAGGCTTTGGCATCATAGCCTAAGGCCGGGCCAGGCCTGTTGGTGGCCATGACCCCCGCTGTTCTCCTGCACTTGAGCTCTAACACAGTAACCTCACGCTCTGCTCTGCTTTGGTTTCTCTGCTGCTTGGACTCTGAATCTTGACCTCTGCCCTTTACCCTTTGCCCTGCTCTGGCTGAGCAGCCGAGGGAGCGGGACGTAATCAGGAGTGTGCGCCTGGTGAGTGGTTGTGCCTGCCGACATGGCAGCACCTGGGCTTCCCAAGACCGTGGAGCCCACCCAACTCACCTGGGGATTGCGGCCAGTCCAGCCTGGCCCACATCTGGCTTGTGGGCAGGCAGATGGCTGTGTGTCCAGCTGCCTGCTGTCCTTCATGCTGCCTACCTGGGGCTGGGCCAGAGACTCACCAGAAGCTGCAGTGGGTACCACTGAGGACCCCACCCCCAACCCCCAGGGCCACTGCCCACTGCCTGTGGCTTCCTGGCTATTGTCTCTCCCCCACTCCCTTCCTTCCTTCCCACAGGCAGGGTTGCTGGCTTTCAGAGCCTGCCCCTGGGCTGGTGGTCATCCAGCTACAGAGGGGGAACCTGGGATCATGAAGGGGCTGTGGATGCACTAGAGGAGACCCTTGGTTTAGCTGACCCTGCTGTTCTGGGGGTTGCCCCGTGGTCCCTAACTGAGCCTTGCCTCCTCCTAG
Seq C2 exon
CCCCGCGAGAAAGGGAGGATGCGCTTCCACAAGCTGCAGAATGTGCAGATTGCCCTGGACTATCTCCGACATCGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022565-Plec:NM_201388:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.008
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0030726=CH=FE(28.7=100)

							
A:
NA

							
C2:
PF0030726=CH=PU(37.3=95.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000073124





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000087037, ENSMUSP00000127867, ENSMUSP00000130915
          









    
Other Skipping Isoforms:
ENSMUSP00000023226, ENSMUSP00000057158, ENSMUSP00000071765, ENSMUSP00000072478, ENSMUSP00000073124f1277A, ENSMUSP00000074383, ENSMUSP00000075693, ENSMUSP00000075772, ENSMUSP00000126068, ENSMUSP00000126526, ENSMUSP00000126936, ENSMUSP00000127253, ENSMUSP00000130948, ENSMUSP00000131946
  



Associated events






Conservation


Human
(hg38)
chr8:143937243-143938150 
ALTERNATIVE
HsaINT0127085
(PLEC)
Human
(hg19)
chr8:145011411-145012318 
ALTERNATIVE
HsaINT0127085
(PLEC)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr14:2066869-2067670 
ALTERNATIVE
BtaINT0113452
(PLEC)
Chicken
(galGal4)
chr23:5317185-5319079 
LOW PSI
GgaINT0137828
([1])
Chicken
(galGal3)
chr23:5631144-5633723 
LOW PSI
GgaINT0137828
(MACF1)
Zebrafish
(danRer10)
chr19:22879327-22882038 
LOW PSI
DreINT0115631
(pleca)
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
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]










Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"