MITOMAP: Polymorphic mtDNA High Resolution Restriction Sites

Detected by High Resolution Screening of Human Populations

Last Edited: Jun 01, 2003 This page is no longer maintained.

Enzyme	Cut Sequence	High Resolution Restriction Sites	References
Acc I	GTVWAC	-15254	references
Alu I	AGCT	+259,+675,-856,-1240,+1403,-1610,-1670,+1718,-1893,-1917,-2208,+2223,+2250,+2293,+2384,+2734,-3537,+3981,-4310,-4411,-4631,-4685,-4769,+4877,-4990,+5133,-5176,-5584,-5697,-5823,-5978,-5996,-6022,-6204,-6867,+7025,-7055,-7474,-7641,-8074,+8198,+8268,+8327,+8466,+8484,+8678,+8774,+9009,+9299,+9504,-9644,+10028,+10097,+10135,+10143,-10352,+10397,+10413,-10598,+10694,+11100,+11321,+11350,-11362,+11425,+11469,-11576,+11806,+11892,-12282,-12560,+12763,+12990,+13068,+13262,+13284,-14015,-14304,+14322,+14509,+14899,+15245,+15437,+15606,-15776,+16226,+16240,+16246,+16254	references
Ava II	GGRCC	+748,+4332,+4481,+5259,+5984,+6332,+6581,+6699,+7025,-7055,+8249,+8391,+9589,+10028,-11577,-12629,-13367,+15487,+15591,+15882,-16390	references
BamHI	GGATCC	+13366,-14258,+16389	references
Bfa I	CTAG	+5004	references
BstNI	CCRGG	+13467,-13704,+14276	references
Dde I	CTNAG	+29,+64,-853,+868,+1043,-1637,-1667,-1715,-1923,+2247,-2856,-3192,+3388,-3534,+3846,+3930,-5003,+5076,-5552,-5646,+5671,-6296,+6356,-6377,-7103,+7319,-7750,-8309,-8515,+8569,+8714,+9147,-9272,-9500,-9641,+10394,-10631,+10746,+11074,+11146,+11793,-12663,-12891,+12946,-13065,+13467,+14385,+14394,+14493,-14608,+14773,+14923,-15073,-15238,-15250,+15434,+15660,+15727,+15751,-15996,+16262,+16270,+16297,-16380,+16467,+16479,+16528	references
EcoR I	GAATTC	~	references
FnuD II	CGCG	+14678	references
Hae II	PGCGCQ	+1622,-4529,+4830,-9052,+9326,+11001,+11968,+12949,+14223,-14858,-15002	references
Hae III	GGCC	+8,-322,+625,+663,+929,+1063,-1463,-1484,+1718,+2636,-3315,+3391,-3412,+3624,+3624,+3714,+3744,+3842,-3849,+4092,-4563,+4793,-4848,-5261,+5315,-5837,-6027,-6260,+6425,+6534,+6618,-6957,+7325,+7347,-7497,+7607,+7792,-7853,+7979,+8148,+8165,-8250,-8391,-8572,-8838,+8872,+8901,+8920,-8994,-9025,+9156,+9181,+9209,+9253,-9266,-9294,-9342,+9386,-9553,+9714,+9810,-9953,+10097,-10364,-10689,+10725,+11092,+11313,+11329,+11390,+12185,+13018,-13051,+13284,+13633,-13702,-13957,+14279,+14749,+14899,-15047,-15073,-15172,+15431,+15520,+15595,+15614,-15883,+16145,+16318,+16398,-16456,+16517,+16534	references
Hha I	GCGC	-160,+255,+1536,+1623,+1941,-3698,-4360,+4831,+5351,+5538,-5971,+6166,-7598,+7617,+7828,+8858,-9053,+9192,+9327,-9380,+10066,+11002,-11691,+11969,+12940,+12950,-13208,+13940,+14224,-14859,-15003,+15615	references
Hinc II	GTQPAC	+207,-1004,+3659,+3759,-7853,+7937,+12026,-12406,-13259,-13634,-14199,+14648,+16216	references
Hind III	AAGCTT	~	references
Hinf I	GANTC	+316,+717,+3359,+4092,+4546,-4810,+5072,+5198,-5983,-6211,+6610,-6871,-6931,+7672,+7970,+8615,-8783,+9209,+9493,+9683,-9753,+9820,+9859,+9984,+10054,-10256,+10806,-10830,-10971,-11403,+12008,-12170,+12925,-13031,-13103,-13268,-13916,+14268,-14368,+15005,-15234,-15375,-15723,-16000,-16065,+16096,+16246,+16389,+16490	references
Hpa I	GTTAAC	+207,+1004,+3592,+12026,-12406	references
Mae III	GTNAC	-11651	references
Mbo I	GATC	+8,+125,+340,-740,-951,+2113,+2349,+2390,+3090,-3569,+4026,+5372,+5389,-6904,+7316,+7570,-7658,+7852,-7859,+7933,+8565,-8592,-8616,-8729,+9150,+9942,+9985,-10254,+10934,+11431,+11439,-11922,+12171,+12528,+12629,+12795,+12849,+13004,+13104,+13152,+13180,+13367,+13575,-14259,+14279,+14749,-14869,-15060,+15195,+15235,+15397,-15591,+15790,+15954,+16145,+16170,+16176,+16215,+16373,+16390,+16398	references
Mse I	TTAA	-14766,+15904	references
Msp I	CCGG	+64,-104,-931,+4593,-4711,-5742,+5754,+6501,-6688,+7159,-8112,-8150,+11161,-11688,-12123,+13100,+14139,+14567,+15485,+15912,-15925,-16453,+16494	references
Nla III	CATG	+4336,-4577	references
Pst I	CTGCAG	-6910	references
Pvu II	CAGCTG	-1002	references
Rsa I	GTAC	+54,+163,-1307,-1476,+1830,+1842,-2758,-2849,-3123,-3337,+3371,+3397,+3987,+4051,-4464,+4643,+4723,+4732,+4745,-5054,+5164,+5492,+5566,+5985,+6915,-7013,+7241,+7697,+7702,-7897,-7912,-8012,+8078,+8156,+8269,+8299,+9336,+9429,-9746,+9926,+10407,+10524,+10644,+10656,-10737,+11063,-11447,-11546,+11900,+11974,+12345,+12345,+12810,+13096,-13325,+13542,+14347,+15346,+15412,-15812,+15872,+15894,+15907,-16049,+16089,-16096,-16125,-16156,-16208,-16303,-16310,-16329,+16436	references
Taq I	TCGA	+134,+267,+669,+712,+1229,-1413,-2987,+3868,+3899,-3944,+4328,+5125,-5269,+5370,+6049,-7335,-7461,-8005,+9070,-9751,+10084,-10180,+10252,+10893,+11924,-13404,+13635,+14050,+14168,-14956,+15549,+15861,+16178,+16217,+16224,+16238,+16512	references
Xba I	TCTAGA	-1193,-7440,-8286	references
Xho I	CTCGAG	-15068	references

Note:

These anaysis have employed numerous endonucleases, including enzymes with four base pair recognition sites, and have been carried out by either digestion of purified mtDNA with separation of the fragments on acrylamide gels (references); or by PCR amplification of the mtDNA in well-defined or overlapping fragments, endonuclease digestion, and separation the restriction fragments on high resolution agarose gels (references) . Each nucleotide listed is the first nucleotide of the restriction endonuclease recognition sequence. A plus (+) indicates a site gain, and a minus (-) indicates a site loss relative to the reference "Cambridge" sequence, Genbank NC_012920. Codes for recognition sites are: N=A/G/C/T; P=A/G; ; S=C/G; W=G/T; V=A/C. Restriction sites separated by a slash indicate that the mutation could have occured in one or the other of the listed sites. Restriction analysis and/or sequence analysis of mtDNA extracted from ancient tissues and amplified through PCR is not included in this table but it has been used in several studies (references).