In Situ Hybridisation Probes

Abbreviations and color codes

A B C D E F G H I J K L M N O P Q R S T U V X Y Z
A
Molecule Length Position Probe sequence Accession no ref
A. Cyclase1 45 4-48 cgataccatcacatccgtggctgaggctactgaagtagacctgaa M25579bo SK
A.Cyclase2 #2 43 2915-2957 tcaggttcctgggcgtgctcctggctgggtatggcactcagtc M80550 Mons. SK
A.Cyclase5 42 1266-1307 cacggttgcagagcacagccatgataaggatcacgcccacag M96159 Sakagami. SK
Acetyl Choline Receptor
Agrin #1  45 5147-5191 tctggtacgagttggagttcctcggagagatataaccccctcgag M64780
Agrin #2 45 4901-4945 atgaggagatgttacccgtcttctgtctaccgttccccctgaaac M64780
Agrin #3 48 2940-2987 ggccacgcggtgcttctggggatgctgactgtggtgtgaggtgatatg M64780
ARIA (ig) 48 431-478 cgacccgagcccagcactgcctcccagattgaaagaaatgaagagcca U02318
ARIA (egf) 48 829-876 gcgcaaacacttcttcatccacatcaacatccacgactgggaccagcc U02318
B
Molecule Length Position Probe sequence Accession no ref
BDNF 48 2695-2742 tccagtgccttttgtctatgcccctgcagccttccttcgtgtaaccca D10938
Beta2-MG 48 65-112 cggtggatggcgagagtacacttgaatttggggagttttctgaatggc Y00441 H. Linda
Beta2-MG 48 276-323 tgacgtgtttaactctgcaagcatatacatcggtctcggtgggtgtga Y00441 Ming
C
Molecule Length Position Probe sequence Accession no ref
CaCalmkin 2alpha 48 1463-1510 aagcaagagcgcagggaccctggcctggtccttcaatggggcaggacg J02942 Burgin et al 1990 J Neurosci. SK
CaCalmkin 2beta 39 1152-1190 ggcggcaggagggagggatcctttggggctggtgatggc M16112 Burgin. SK
CaCalmkin 4alpha 45 111-155 caacacaggagcgagaggaggcgtccttcagcgcgcacacgccca M64757 Sakagavi & Kondo 93. SK
CaCalmkin 4beta 45 11-55 ggctgcaagcaggcgagtcccttctaccttgcagcagctaaacag S65840 Sakagami. SK
Calbindin 32 206-238 tggatcaagttctgcagctcctttccttccag M21531mo Liot et al neuroreport 95. SK
Calretinin 45 44-88/55-99 ctcggccaggtgcaggtaagggggctgctgctgcgggccagccat X56667ho/X66974 SK
Cardiotrophin-1 D78591
CGRPa 35 664-698 gttccattgagtcacaacattaccatgtccccaga M11597
CGRPb 35 656-690 agaacctatttggtttgctgcaaaggatgccagca M11596
CGRP-receptor AF440799
ChAT 43 1818-1860 cccgtggaccgaccacctctcctgtttggccaacgagtagtcc 5'-3' sense
gggcacctggctggtggagaggacaaaccggttgctcatcagg 3'-5' antisense
ggactactcgttggccaaacaggagaggtggtcggtccacggg 5'-3' antisense		 Not submitted Brice 1989
ChAT 45 49-93 ccagaaataccctcgggtgtcagagatgtgccctcacctatgcaa (intron!) L02952
CNTF 38 285-322 cccttggaaggtacggtaagcctggaggttctcttggagtcgctctgc X17457
CNTFR alpha 48 467-514 acagtcacattgaaggtattggggatgtaggtgggggcggacaggtgc S54212(S57711) Hammarberg
CNTFR alpha 36 129–164 ctgtggactgtgtttctgggtgtagacagcggcagc S54212 Kami
CNTFR alpha 31 470–500 ggtattggggatgtaggtgggggcggacagg S54212 Kami
COX-2 U03389
D
Molecule Length Position Probe sequence Accession no ref
DAPkinase 1 45 4485-4529 gacaggaggggctctggcttcccaagtgaccgaagtgaaccacat Not subm Sakagami. SK
DAPkinase 2 45 4106-4150 ccagctcccgaagtttggatataaggatgcccaccgtgctctcag Not subm Sakagami. SK
E
Molecule Length Position Probe sequence Accession no ref
ErbB2  45 2933-2977 agattccgggagttggtgtcagaattttcacgtatggcgagggac X03362  Ncl
ErbB3 45 3316-3360 ggagaggcttgtctggattctgcggttttggggggtcgtgaacag U29339  Ncl
ErbB4 45 131-175 aacaaggaatgcccatgtcctaccgagccacaaccagcaccatac U52531 ptl (AF041838 cpl) Ncl
Estrogen rec 43 250-294 Y00102
Estrogen rec 48 1922-1969 Y00102
F
Molecule Length Position Probe sequence Accession no ref
FGF-5  pending M30643 mo Ncl
bFGF (FGF-2) #1 45 760-804  agcagccgtccatcttccttcatagccaggtaccggttcgcacac M22427 Ncl, Speliotes
bFGF (FGF-2) #2 pending X07285 Ncl
FGFR-1 40 1511-1543 tcttcacggccactttggtcacgcggttgggttgtgtcctt D12498 EED
FGFR-2 L19109AF147757 Kästner
FGFR-3 M81342 mo Kästner
FGFR-4 M91599 Kästner
G
Molecule Length Position Probe sequence Accession no ref
GAPDH 860-902 gtcctcagtgtagcccaggatgccctttagtgggccctcggcc Fort/Piehl 
GAP-43 48 70-117 ctcatcattcttttcaacctgtttggttcttctcatacagcacagcat M16228 HAJ
GDNF #1 271-321 ctctctcttcgaggaagtgccgccgcttgtttatctggtgaccttttcagt L15305 Nosrat 97
GDNF #2 50 540-589 cctgcaacatgcctggcctaccttgtcacttgttagccttctacttc L15305 Nosrat 97
GDNF #3 51 478-528 agtattttgtcgtacattgtctcggccgcttcacaggaaccgctacaatat L15305 L. Olsson
GDNF #4 50 256-305 gtgccgccgcttgtttatctggtgaccttttcagtcttttgatggtggct L15305 A. Josephson
GFRa1 #1 50 100-149 tcgctctgccgcccaccgccgccagcgactcagatccgggcgggcgcgag U59486 Nosrat 97
GFRa1 #2 47 805-851 tggacatgctggtggtgcagggggtgatgtaggccgacctgtacttc U59486 Nosrat 97
GFRa1 #3 46 1112-1157 ggcagtctgcgtagttctccttaagacagttgctgacagaccttga U59486 J. Widenfalk
GFRa2 48  1042-1089 gcaccagggagacaccacgatgcccgtggggttggagtccacatagtt U97143 Bennett
GFRa2 34 1382-1415 cctggactgatgtttgtcgtgagctctgtgaagc U97143 EBB
GFRa2 45 925-969 ggtgattgtccggtaggaggctcgacagttggcgtggaaatctgc U97143 A. Josephson
Glutamate Receptor & Transporter
gp130 48 987-1034 cgctttggatggtctgtcttcatatgtggtcccgctcgcctcctcact M92340 Hammarberg
gp130 48 1908-1955 tcccagcagcgttgtcaggaggaaagctaagcacacaggcacgactat M92340 Hammarberg
G-prot. a11 45 804-848 gaaccaggggtaggtgatgattgtgcggaacagggccttgctctc M55411mo (L37293) SK
G-prot a-i-1 45  669-713 tggttgtgctattctgtccaagtcattcaggtagtacgccgccga M17527 SK
G-prot a-i-2 45 668-712 tttcgacgatgcctgtggtcttcacacgggtccgcagcacatcct M17528 SK
G-prot a-o 45 1075-1119 tggatccccgagtcgccccagagtcgcatcatggcagaaagcagt M17526 SK
G-prot a-q 45 905-949 ctgcctgggcatctctctggggtccatcatattctgggaagtagt M55412 SK
G-prot a-s 48 441-488 ggcctccttcaggttgtttttgatgtcctgcactttggtggccttctc M17525 SK
H
Molecule Length Position Probe sequence Accession no ref
HGF D90102
I
Molecule Length Position Probe sequence Accession no ref
IFN g #1  48 392-439 gcagtctagcgttcactacagggagtcaacaccagccaccgtcaacca M29315 Dijkema
IFN g #2 48 301-348 ggtgcgattcgatgacacttatgttgttgctgatggcctggttgtctt M29316 Dijkema
IFN g #3 48 173-220 cgactccttttccgcttccttaggctagattctggtgacagctggtga M29317 Dijkema
IFN g R #1 48 80-120 ctccactcccgatctccgcagacagcatcaggaccaccagcagaatca AF201901 Ming
IFN g R #2 48 1041-1088 agttcttcctgctctggtgcttctaggctgtctggagttgtcactgtg AF201901 Ming
IGFBP-1 42 641-682 gcatgctgctgtaggtgctaatggcattccacaggatgggct M58634 Hammarberg
IGFBP-1 48 841-888 acaccagcagagcccagcttctccatccagagatgtctcgcactgttt M58634
IGFBP-2 46 777-818 acctttgcccatctgccggtgctgctcgttgaccttctcccg NM_013122 Hammarberg
IGFBP-2 46 609-654 cactgtctgcaacctgctgtggggtggcgcccacgcgtctcttttc NM_013122 Sandberg
IGFBP-3 42 421-462 caggagacggctgggaggggaggtaggcactcaggttgctgg NM_012588 Hammarberg
IGFBP-3 46 438-483 cacactcccagcattgtggtcctcctcagactcagtggtgtttcca M33300 Sandberg
IGFBP-4 42 14-55 cccgttggatttcgaagccctgtccactgctgacaatcttgg L08276 Hammarberg
IGFBP-5 42 981-1022 tctttctgcgatccttcttcacagcctcggccttcagctcgg NM_012817 Hammarberg
IGFBP-5 48 879-926 tctcggaggtggtgggttcctcatgctcccgagagtctctctctatct NM_012817 Sandberg
IGFBP-6 42 34-75 tacaccttgaataaatgtagagagccctcagttgaactgagg L11006 Hammarberg
IGFBP-6 45 374-418 ctgggccttataggggcagccgaggtccgtggattcttttgccgg NM_013104 Sandberg
IGF-1 #1  48 46-93 ggtaaaggtgagcaagcagagtgccaggtagaagagatgtgaagacga D00698
IGF-1 #2 48 236-283 tctccagcctcctcagatcacagctccggaagcaacactcatccacaa D00698
IGF-2 42 1167-1208 gcccccgctaggtgcggacgcgcggaaggccggctgcgccgc X03562 Hammarberg
IGFR-1alpha 44 565-608 tcctccaaggtccctggacacaggtccccacattcctttggggg M27293 Sandberg
IGFR-1 alpha 48 624-671 tttgtggtccagcagcggtagttgtactcattgttgatggtggtcttc M27293 EED
IGFR-1 alpha 48 950-997 tctgggtgctgttgcggatgaagcctgatggacactcctgcatgcact M27293 EED
IGFR-1 alpha 30 638-667 tggtccagcagcggtagttgtactcattgt M27293 Islam 98
IGFR-1 alpha 30 158-187 gcttcagctgctgatagtcgttgcggatgt M27293 Islam 98
IL-1 b #1 48 773-820 gacaggtctgtgctctgcttgagaggtgctgatgtaccagttggggaa M98820 Feeser
IL-1 b #2 48 645-692 attgtttgggatccacactctccagctgcagggtgggtgtgccgtctt M98820 Feeser
IL-6 #1 48 3154-3201 tggctgtcaacaacatcagtcccaagaaggcaactggctggaagtctc M26745 Northermann
IL-6 #2 48 7050-7097 agttggatggtcttggtccttagccactccttctgtgactctaacttc M26745 Northermann
IL-6 #3 48 3241-3288 cgacttgtgaagtggtatatactggtctgttgtgggtggtatcctctg M26745 Northermann
IL-6Ralpha NM_017020
Integrin
Inositol phosphates 
J
Molecule Length Position Probe sequence Accession no ref
 
K
Molecule Length Position Probe sequence Accession no ref
 
L
Molecule Length Position Probe sequence Accession no ref
Laminin beta2 42 5184-5225 cgggaacaagtaggtgaccagtaccaaactgtgagggcgttg X16563 
Laminin beta2 48 4076-4123 X16563 
LIF #1 48 370-417 cgcattgagtttgatctggaggctcacggcagtggggttgaggttttt AB010275 Takahama
LIF #2 48 546-593 accgcactaatgacttgcttgtatgtccccaggagctggcagcccaac AB010275 Takahama
LIFR #1 48 3023-3070 catcacggggtcagtgtcctgctcgtcctctgctttggcttgtggctg D86345 Ming
LIFR #1 48 3106-3153 gtcttgtccgcttcatcttctgctgttgtgtcttccgctgtggggtta D86345 Ming
M
Molecule Length Position Probe sequence Accession no ref
MAO-B gta agt cct gcc tcc…..act
MAO-B aca aca aca ttt tct…tcc
MAP-kinase Erk1 47 517-563 tgcgaccttaagatctgtgattttggccttgcccggattgctgaccc M61177 Ncl Sgl
MAP-kinase Erk2 50 1234-1283 ggatacagatcttaaattggtcaggacaagggctcagaggactggacgcg M64300 Ncl
MAP-kinase Erk3 M64301 Ncl
MHC class I #1 48 1002-1049 cctttcccacctgtgtttctcttcctcctcctcctcacaacagccacc L26224 H. Linda
MHC class I #2 48 263-310 tcactcggtaattctgctcgtttcccttggctttctgtgtctccctct L26224 Ming
MyoD M84176 Kästner
Myf5 X56182 mo Kästner
Myogenin M24393 Kästner
MRF4 M27151 Kästner
MuSK  45 409-453 tactgctgcacagccaacaatggagtgggaggagcggtggaaagt U34985
MuSK  48 1675-1722 aggaggagagagtggaaaaataagaaaagagagtcggcagcggtgacc U34985
N
Molecule Length Position Probe sequence Accession no ref
NCAM 31 1187-1217 actctgacatgtgaagcctccggagacccca X06564 Small et al
NF-heavy 54  532-585 ttttgggagtccctcagtaagagagaagggaatgggtccaaagccaatccgaca M37227 Schlaepfer & Bruce
NF-light 54  616-669 aaagacctgcgagctctgagagtagccgctggttatgctacccacgctggtgaa M25638 Schlaepfer & Bruce
NF-medium 54  1238-1391 ctgtcggtgtgtgtacagaggcccagtgatgcttcctgaaaatgtgctaaatct M18628 Schlaepfer & Bruce
NGF
NMDA receptor
nNOS c-term (TH517) 42 4426-4467 cttttttgctctcttcgatgaaggcgatggactcagatctaa X59949(U67309) T.H.
nNOS n-term (TH518) 45 177-221 gggaggcttgctgacccgttccttcaccaggaagcccagacctcc X59949(U67309)
nNOS (TH519) 45 697-741 cactgttgaggatgctcagcacaggttctatctctttgagcagtt X59949(U67309)
nNOS my U67309 Magee
iNOS D44591
NT-3 48 669-716 ttccagtgtttgtcatcaatccccctgcaaccgtttttgactggcctg
NT-4 48 537-584 cattctgagagccagtgcctccgatccacgccgcgacagccccctccg
O
Molecule Length Position Probe sequence Accession no ref
 
P
Molecule Length Position Probe sequence Accession no ref
 p75 42     Accession? Senba
Parvalbumin 44     M12725 Elliot neuroreport 95
Protein Kinase A        
Protein Kinase C        
Phospho Lipase C          

P

Q
R
Molecule Length Position Probe sequence Accession no ref
Rapsyn  45 545-589 gagaaggccctgcgctatgcccacaacaacgatgacaccatgctg J03962 mo
Rapsyn 45 785-829 gagtgttgtgaggagtccatgaagattgccctgcagcacggtgac J03962 mo
Ret (ec) 50 547-596 ttgggacaaaggaactgcacgggtaacatgtggaagtggtagaaggtgcc X67812 mo Nosrat 97
Ret (ic) 50 2527-2576 atctgccaggcgaaggagatgaggtcacccatggtcagtaccctttcatc X67812mo Nosrat 97
Ret (ic) 48 2709-2756 tccggcccntgcttttcttcacataggaatcttcttcataaacatctc AJ299016rat Ming
S
Molecule Length Position Probe sequence Accession no ref
S100beta 49 885-933 acgatgccccggaaagttagacctatcacccacaccctcccaccacccc X01090(M54919)
T
Molecule Length Position Probe sequence Accession no ref
Tenascin-C U15550
TGF beta #1  45 1297-1341 cacttccaacccaggtccttcctaaagtcaatgtacagctgccgt X52498 Qian
TGF beta #2  53 1241-1293 cagcagttcttctctgtggagctgaagcagtagttggtatccagggctctccg X52498 Qian
TNF alpha #1 48 2074-2121 caccagttggttgtctttgagatccatgccattggccaggagggcgtt D00475 Shirai
TNF alpha #2 48 818-865 tttttggggagagcctcctctgccagttccacatctcggatcatgctt D00475 Shirai
trkA 48 1184-1231: agggttgaactcaaaagggttgtccataaaggcagccatgatggaggc NM_021589 Senba
trkB
trkC 48 2152-2199 tgctgatgctgctagcctctgttgctgccacgacacgctgaatgggcc L14447.2
trkC 51 1158-1208 ctctctggaaagggctccttaaggaagtggccgttgatggtctggttggct L14447.2
U
Molecule Length Position Probe sequence Accession no ref
 
V
Molecule Length Position Probe sequence Accession no ref
VAChT #1 48 1806-1853 agccaaaccatgcccatctcccactcggatgcggccattgtgtgcttc Not in Genbank
VAChT #2 48 1447-1494 acgactgcgctcaggctcctcgggatacttgtcggcgatcatggcaat Not in Genbank
X
Molecule Length Position Probe sequence Accession no ref
 
Y
Molecule Length Position Probe sequence Accession no ref
 
Z
Molecule Length Position Probe sequence Accession no ref
 

 
 
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