Table 3

Evolutionary highly conserved motifs in Influenza A virus

Segment

Motif

Length

start position (consensus sequence)

End Position (Consensus Sequence)

H5N1 Start Position

H5N1 End Position

Sequence

Repeated Positions On H5N1

Mapping on Conserved Regions


1 (PB2)

1

9

1652

1660

1631

1639

TGATGTGGG

R8


1 (PB2)

2

6

2254

2259

2232

2237

GAAACG

(2238 - 2243)

R12


1 (PB2)

3

11

2273

2283

2251

2261

AGCATACTTAC

R12


1 (PB2)

4

9

2291

2299

2269

2277

CAGACAGCG

R12


1 (PB2)

1

6

914

919

889

894

ATGATG

(1243 - 1248)

(1246 - 1251)

(1624 - 1629)

(1994 - 1999)

R8


2 (PB1)

2

11

1268

1278

1243

1253

ATGATGATGGG

R10


2 (PB1)

3

6

2354

2359

2248

2253

GAGATC

(101 to 106)

R23, R25


2 (PB1)

4

6

2391

2396

2285

2290

GACGGC

R24, R25


3 (PA)

1

8

2140

2147

2095

2102

GAGGAGTG

R18


3 (PA)

2

6

2150

2155

2105

2110

TGATTA

R18


7 (M)

1

9

93

101

77

85

GGCCCCCTC

R1


7 (M)

2

11

180

190

164

174

AAGACAAGACC

R1


7 (M)

3

8

196

203

180

187

TGTCACCT

R1


7(M)

4

17

237

253

221

237

CTCACCGTGCCCAGTGA

R2


7 (M)

5

7

873

879

855

861

TTCAAAT

R8


7 (M)

6

8

945

952

927

934

ATGAGGGA

R8


8 (NS)

1

7

69

75

43

49

AGGTAGA

R1


8 (NS)

2

10

574

583

529

538

AGGATGTCAA

R6


8 (NS)

3

6

616

621

571

576

AATGGA

( 368- 373)

(383- 388)

R6


The evolutionary conserved motifs found in four of the eight influenza segments, whose criteria are at least 6 consecutive nucleotides that are 100% conserved in all the studied strains and the location of each motif on H5N1 Refseq. Sequences and length are shown

ElHefnawi et al. Virology Journal 2011 8:44   doi:10.1186/1743-422X-8-44

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