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Mitochondrial DNA-like sequences in the nucleus (NUMTs)1

Chromosome 1

Celera Scaffold and Genbank accession numbers are indicated for each NUMT-containing contig. Nucleotide positions of NUMTs in contigs are color-coded according to the analyzed contig. To avoid redundancy, when both Celera and Genbank contigs are available for a given NUMT, repeat information is provided for one of the contig types. (1A): 1 NUMT within a repeated element in the corresponding contig; (1B): 1 NUMT within 1-15bp of a repetitive element in the corresponding contig; (1C): 1 NUMT 15-150bp away from a repetitive element in the corresponding contig; (1D): 1 NUMT more than 150bp away from a repetitive element; (1E): 1 NUMT solely truncated by repeats in the corresponding contig. {39% GC} � average GC content in 100 KB region encompassing the NUMT or NUMTs.

Map Band Type Celera Scaffold and Genbank accession numbers Position in the Contig % similarity Region of similarity to Cambridge sequence
1p36.3
(1C)
R {39%GC} GA_x5J8B7P0VAE:1..500000
Also in Genbank: AL663100.12
402617-402926
403225-403024 403234-403437
82 !AluY
910-1123
Charlie4a(Mer1)
1p36.3
(1D)
R {50%GC} GA_x5J8B7P0VAE:4000001..4500000
Also in Genbank: AL356693.37
134519-134728 90 2466-2675
1p36.3
(1B)
R {45%GC} GA_x5J8B7P0VAE:1000001..1500000
Also in Genbank: AL139415.10
67560-67686
67760-67922
67938-68046
68227-68065
68234-68291
68292-68600
68601-68612
68613-68738
68739-68962
L2(np2481-2611)
!AluSx
L2(np2725-2833)
8040-8202
LTR16A(np442-385)
!AluSc
!LTR16A(np385-373)
!L1PB2
!LTR16A(np374-145)
1p34.3
(1D)
R {43.5% GC} GA_x5L2HTVAVSK:8500001..9000000
Also in Genbank: AL513220.9
488658-488731 100 8934-9007
1p32 (15q26)
(1A)
R (R)
{38%GC}
GA_x54KRE9971S:1..3319
AL645730.10
2-358
364-751
77023-77460
77459-77868
77874-78236
78
 
77
4666-5022
L1Pa15
L1PA5(np5360-5801)
4612-5022
L1PA5(np5782-6133)
1p31
(1C)
G {35% GC} GA_x5HB7VCJ5FA:3500001..4000000
Also in Genbank: AC096951.2
467872-467706
467904-467988
89
16401-16567
L1ME
1p13
(1D)
R (35% GC} AL627169.8 10559-7110 74 5855-9316
1p22
(1B)
R {40% GC) AL117351.12
45203-45528
45584-45700

45702-47060
47060-47390

47385-48225

48227-49037

49037-49172
49190-49513
49502-49721

49726-49781
49782-50095
50096-50418
50419-50460
50461-54817
54818-55160

55161-55991
55921-56076

 
56087-56345

56354-56450

 
56441-56831
56881-56954

 
56958-57257
57258-57351

 
57354-57510

 
57560-58050
58035-58076

 
58095-58268

 
58350-58558

58612-59265
59337-59470
59607-59910

59910-60877

 
60882-61158
61164-61193

61190-61485
61485-61693

 
61703-62490

 
 
62052-62075
62508-62625
62639-62666

62689-62756
62757-63055
63052-63280

 
69

 
 

 
66


 
75
68

 
 
 
 
 
 
71
75
 
 
 
75

 
70
77

 
 
65

 
80

 
67
88

 
70

 
 
70

 
69

 
 
 
72
67

 
73

 
 
 
 
 
78

72
L1ME
AT_Rich
1721-3106
Tigger1(Mer2type_np 2418-2082)
Tigger1(Mer2type_np 1766-910)

4572-5438 (blue whale mtDNA NC_001601.1)
FLAM_C(Alu)
5566-5892
5767-5990(blue whale mtDNA NC_001601.1)
!L1PB1 (np6151-6096)
!AluSx
!L1PB1 (np6096-5774)
(TA)n
!L1PB1 (np5774-1436)
MSTA(LTR/MaLR)

6841-7680
7065-7226(CO2)
(NC_001779.1, Rhinoceros mtDNA)
AluSq
4530-4620
(NC_001950.1, mtDNA
of spotted catshark)
7863-8246
7753-7826 (NC_001779.1, Rhinoceros mtDNA)
!AluJb
7768-7861
(NC_001665.1, Rat mtDNA)
7924-8071 (NC_001779.1, Rhinoceros mtDNA)
8688-9191
8579-8620
(NC_002009.1 Fruit eating bat mtDNA)
8697-8875
(NC_001821.1
armadillo mtDNA)
!AluJb
9921-10579
FLAM_A(Alu)
!AluJb

10915-11904
(blue whale mtDNA NC_001601.1)
!AluSx
(CAAAA)n

12032-12340
12665-12897
(NC_001602.1 mtDNA of the gray seal)
XM_015980.4 (Human 16.7Kd protein-removed from Genbank)
(CAG)n
FLAM_C(Alu)
(A)n

12586-12653
!AluSx
12639-12875
1p11
(1B)
Centromere
{39% GC}
AC022192.3 103004-103534
103535-103832
103833-103886

104418-103878
104487-104441
105835-104485
105846-106807
106584-106643
106810-107498
 
 
 
82
80
74
73
 
 
SATR1(np969-492)
!AluY
SATR1(np492-1)

987-1534
15042-15087
5604-6979
9394-10319
(TA)n
SATR1(np779-1)
1q12
(1B)
Grey {42% GC} GA_x54KRE8AV33:1..500000
Also in Genbank:
AC068398.3
79526-79415
14706-15623
16596-15626
15791-15850
16595-17950
18017-18555
18548-18581NNN
88

74

74
83
6870-6981
SATR1(np1-1028)
9386-10319
(TA)n
5596-6979
987-1526
SATR1(np216-250)
1q24
(1C)
G {40% GC} GA_x54KRE8EL5L:6500001..7000000
Also in Genbank:AL160059.7
290898-291033
291093-291486
291598-291644
291662-291724

76
 
MIR(np82-226)
12143-12536
MIR(np216-262)MIR3
1q43
(1B)
G(39% GC} GA_x5J8B7NYNCY:4000001..4500000
Also in Genbank:
AL590396.13
299067-309581
42076-42201
42298-42371

48098-42476
48101-48143
48613-48705

49016-48776
53428-49033
81

 
78
 
70
72
12562-6189
MER117(Mer1_type)
MIR

573-6196
(TA)n
(CGTG)n

12-244
12156-16563
1q43
(1B; 1A)
G {43% GC} GA_x5J8B7NYNCY:6500001..7000000
Also in Genbank:AL451068.13
219597-224583
241914-241006
112001-112272
112298-112442

112436-113344
113336-113344
113345-113426
113427-113469
129666-129714
129744-12980

134797-129811
134814-135001
74
71


71

 
 
 
 
74
9771-14799
14796-15722
AluJo
THE1b(LTR/MaLR)

14796-15722
(CATATA)n
!L1PA17
(CATATA)n
Alu
!AluSx (np290-233)

9771-14799
!AluSx (np249-62)

1 Data from Supplemental material, Mishmar, D., Ruiz-Pesini, E., Brandon, M., and Wallace, D.C. 2004. Mitochondrial DNA-like sequences in the nucleus (NUMTs): insights into our African origins and the mechanism of foreign DNA integration. Human Mutation 23(2):125-133.
Topic revision: r1 - 15 Sep 2015, UnknownUser
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