From: idunham@uk.ac.crc (Dr. I. Dunham)
Newsgroups: bionet.genome.chrom22
Subject: STSs
Date: 12 Aug 92 13:37:16 GMT
Distribution: bionet
Original-To: chrom-22@uk.ac.daresbury


SUMMARY OF STS PRIMERS AND CONDITIONS 11/8/92
=============================================

This is a summary of the panel of STSs we have developed and collected so far.  Full details are in press in Genomics.  Seven are previously published primer pairs (ARSA, D22S1, D22S15, D22S156, IL2RB, MB, SGLT1 - references below). The ACR and D22S1

The oligo pair information is presented in paragraphs below, one paragraph for each STS and each line of the paragraph representing a field of information for the STS as in the key.


KEY
===

STS NAME
LOCUS
PRODUCT SIZE (bp)   
PRIMER SEQUENCES
GENBANK ACCESSION NUMBER FROM WHICH PRIMERS DERIVED
LOCALISATION
CONDITIONS  


The conditions field refers to the annealing temperature for each STS, the rest of the conditions are constant, being 50mM KCl, 10mM Tris-HCl pH 8.3, 1.5mM MgCl2 , 200uM each dNTP, 20ng each oligonucleotide, 0.05units/ul Taq DNA polymerase (Promega),


ACR            
ACROSIN                       
200     
5'-TGACAATTCACACCTCCTCACATCC-3'                                          5'-GCACATGAGAGGCCCGCCGCTGTCT-3'
X17349 
22q13-qter                                                            
5


ARSA           
ARYLSULPHATASE A              
774     
5'-ATGACCTCATGGCCGACGCCCAGCGCCAGG-3'
5'-AGGGTTCCAAGGAGAGGGCCTGCGGACTGA-3'   
J04593 J04442 
22q13.31-qter          
5   

BCR            
BREAKPOINT CLUSTER REGION     
446     
5'-CAGGCATCCTTCAGAAGCGG-3'            
5'-GTATAGACCTGGCAGCAGGG-3'
X13921         
22q11                  
6

BZRP           
PERIPHERAL BENZODIAZEPINE RECEPTOR    
231     
5'-GCGGCTGCCAGAGTGAGTGC-3' 
5'-TCCATGTTCCAAGAACATGC-3'           
M36035         
22q13.31-qter          
5 
                  
COMT           
CATECHOL-0-METHYLTRANSFERASE  
279     
5'-GACAACGTGATCTGCCCAGG-3'
5'-AGGTGTGCTTTGCATTTAGG-3'            
M58525         
22q11                  
5 
  
CRYB2         
CRYSTALLIN,BETA POLYPEPTIDE   
229     
5'-GCCCATGAAAGTGGTGAGCC-3'            
5'-ACCCTCAAGCTAATAAGCAC-3'
M18441         
22q11.2-12.1           
3 

CYP2D          
CYTOCHROME P450, SUBFAMILY IID
445     
5'-CTCCACCTTGCGCAACTTGG-3' 
5'-CCCATCTACGCAAATCCTGC-3'
M33189         
22q13-qter             
5 
 
CYP2DP         
CYTOCHROME P450, PSEUDOGENE   
273     
5'-GGTTGGCTCACAGCAGAAGG-3'                           
5'-GTTGGTGCTGCTGCATCAGG-3'
22q13-qter             
6 
  
D22S1                                        
D22S1
300     
5'-ATGTGGAATGGTCGACCTGATGCT-3'                       
5'-ATCTGTTGACCTGGTCCACGCATA-3'
22q11.2-q12            
5 
  
D22S15 
D22S15                                      
310     
5'-CAACAGCTTCATGGCCACCATAATG-3' 
5'-CGACCACTAATCTCCTTTTCTGGTT-3'           
22q12-q13.1            
5 
 
D22S156
D22S156                                      
96-110  
5'-AGCCTGGGAGTCAGAGTGA-3'                            
5'-AGCTCCAAATCCAAAGACGT-3'
22q11-q13.1            
6 

D22S193 
D22S193                                     
273     
5'-CTGTTGGCAGCTTTGTAGGGATTTG-3'                      
5'-CATTATATGCAGAAATCAGCCCCAT-3'
22q11-q12              
2  

DIA1           
DIAPHORASE (NADH)             
251     
5'-AAACACTGAGGCAGCCTTGG-3'            
5'-AAAGCCAATACGCAAGAGGC-3'
M16462         
22q13.31-qter          
5 
  
GGT1/2         
GAMMA-GLUTAMYLTRANSFERASE     
194     
5'-TTCATCGCTGTGGTGCAAGC-3'            
5'-TCTGCTGCTCACAGGGGAAG-3'
J041341        
22q11.2-q12.1          
5
  
HCF2           
HEPARIN COFACTOR II           
187     
5'-TAGCACCATTCTTGATGTCC-3'            
5'-CTCTAGTATGGGAGACATGG-3'
M12849  M19241       
22q11.2                
2 
             
IGJ2           
IMMUNOGLOBULIN JOINING REGION 2       
257     
5'-ACCAAGCTGACCGTCCTAGG-3'            
5'-GACAGACGAGGCTCAGTAGG-3'
X06878         
22q11                  
2
                               
IGKVP3         
IMMUNOGLOBULIN KAPPA VARIABLE REGION PSEUDOGENE 3
451     
5'-ACCTGGGTCAGAACTCAGGG-3'                           
5'-CCTTAGATGAGGAACCAGGG-3'
-
22q11                  
5
                              
IGLC2          
IMMUNOGLOBULIN LAMBDA LIGHT CHAIN CONSTANT REGION C2
349     
5'-CACCTCATCATATACTGAGG-3'            
5'-TCCCTTCATGCGTGACCAGG-3'
X06875         
22q11                  
2  

IL2RB          
INTERLEUKIN-2 RECEPTOR BETA-CHAIN  
90-112  
5'-GCTAGGCCCCTATTTGACA-3'             
5'-AAAGATCTGCCTCCTACG-3'
X53093         
22q13-qter             
2
  
LIF            
LEUKEMIA INHIBITORY FACTOR    
304     
5'-TCAGAGAACTTGGGCATAGG-3'            
5'-TACCCAGAGGAAGAGCCTGG-3'
M63420  J05436     
22q11.2-q13.1          
2 
             
MB             
MYOGLOBIN                     
471     
5'-ACTTGAACTCTAGTCTGGCTGCCCC-3'       
5'-CAAAGTGGGTGGCAGTCCCCTTTAC-3'
X00371         
22q11.2-qter           
6

NAGA           
N-ACETYLGALACTOSAMINIDASE     
288     
5'-TTGGGGCCAGCACTCATACG-3'            
5'-CAGACAGGACCTACCATTGC-3'
M59199         
22q13-qter             
5 
 
PDGFB          
PLATELET-DERIVED GROWTH FACTOR BETA PEPTIDE
267     
5'-TGACAGGCTCTAAGGGAAGG-3'            
5'-GCTTGCACCTCCTGGGCAAG-3'
M19719  J03431       
22q12.3-q13.1          
4
              
PVALB          
PARVALBUMIN                   
1600    
5'-CGACCACAAAAAGTTCTTCC-3'            
5'-TGGTTTCTTTAGCAGACAGG-3'
X63578         
22q12-q13.1            
5 
   
SGLT1          
SODIUM/GLUCOSE TRANSPORTER 1  
260     
5'-CTGGCGAGAGGGAAGGACGC-3'            
5'-TCCACCGACACTTAAGCCTACT-3'
M24847         
22q11.2-qter           
5 
   
G22P1          
THYROID AUTOANTIGEN           
236     
5'-TCACCAAGCACTTCCAGGAC-3'
5'-TTAGGGCTCTTTATTCAGGC-3'            
J04607         
22q11-q13              
2 
   
TCN2           
TRANSCOBALAMIN II             
171     
5'-GATCACCCCAGCCACAAG-3'              
5'-GAGTCTGAGATGCTTCATGCC-3'
M60396         
22q11-q13.1            
1 
   
XBP            
X-BOX BINDING PROTEIN         
168     
5'-GGCTTGCCTCCAGTTTTAGG-3'            
5'-AGAAAGCACCTTTCAGAAGC-3'
M31627         
22q11-q13.1            
5 

YESP           
YAMAGUCHI SARCOMA PSEUDOGENE         
683     
5'-CTACACAGAACATGCTGATG-3'            
5'-GTTACCAGTTCTGTCTGTAG-3'
D00333         
22q11-q12              
2 


References to published STSs
============================


ARSA 

Title	 "An assay for the rapid detection of the arylsulfatase A \
	pseudodeficiency allele facilitates diagnosis and genetic counseling \
	for metachromatic leukodystophy"
Journal	 "Hum Genet"
Year	 1991
Volume	 86
Page	251 255
Author	 "Gieselmann V"




D22S1  D22S15

Title	 "Streamlined approach to creating yeast artificial chromosome \
	libraries from specialized cell sources"
Journal	 "Proc Natl Acad Sci USA"
Year	 1990
Volume	 87
Page	 8637 8641
Author	 "Feingold J M"
Author	 "Ogden S D"
Author	 "Denny C T"



MB 

Title	 "Development of human chromosome-specific PCR primers for \
	characterisation of somatic cell hybrids"
Journal	 "Genomics"
Year	 1991
Volume	 9
Page	 73 77
Author	 "Abbott C"
Author	 "Povey S"



SGLT1

Title	 "Glucose/galactose malabsorption caused by a defect in the \
	Na+/glucose cotransporter"
Journal	 "Nature"
Year	 1991
Volume	 350
Page	 354 356
Author	 "Turk E"
Author	 "Zabel B"
Author	 "Mundlos S"
Author	 "Dyer J"
Author	 "Wright E M"


D22S156

Title   "In: Repository catalogue of human and mouse DNA probes and libraries, ATCC/NIH, Maryland"
Page    47 49
Author  "Weber J"


IL2RB

Title	 "Genetic localisation of the interleukin 2 receptor-beta \
	(IL2RB)"
Journal	 "Cytogenet Cell Genet"
Year	 1991
Volume	 58
Page	 205
Author	 "Buetow K H"
Author	 "Yang B"
Author	 "Budarf M L"
Author	 "Emanuel B S"


Hope these are helpful 

Ian Dunham & John Collins
idunham@uk.ac.crc