Table of all Cytochrome P450 genes and pseudogenes in rice, Arabidopsis and Populus

D. Nelson April 4, 2005, revised Dec. 23, 2005

Rice is shown in red, Arabidopsis in black, Populus in blue

Subfamilies present in Arab. and rice are highlighted in yellow.

Families absent in rice or Arab. are highlighted in cyan.

The Populus pseudogenes (203 sequences) are highlighted cyan. The pseudogenes

end in several conventions –de for detritus exon near the parent gene,

-se for solo exon not associated with a parent gene. –un for pseudogenes

unassigned to a specific subfamily. The capital P on the end of a gene indicates

a more complete pseudogene, not just one or two exons.

There are 310 unique named cottonwood P450s. In addition to these there are

52 probable alleles with slightly different sequences to these 310. The alleles

are marked as v1, v2, v3 etc. on the end of the names. Some of these might be due to

sequence errors on duplicated contigs. 13 of the 310 sequences are incomplete,

with part of the sequence in a sequence gap or split into non-overlapping contigs.

[71D27, 71D44, 71D28, 76T4, 80C2, 81B10, 81S2, 82C8, 89A25, 98A26, 72D2, 714E2, 716C3]

13 sequences have a duplicate seq on another contig that is 100% identical

or has just one or two aa differences. These 13 are

[71B40v1, 71B40v2, 71D22v1, 71D22v2, 71D29v1, 71D29v2, 71D38v1, 71D38v2,

71D40Pv1, 71D40Pv2, 74C6v1, 74C6v2, 74C7v1, 74C7v1, 85A1, 85A1P, 98A25v1,

98A25v2, 704A12, 704A12P, 705B4Pv1, 705B4Pv2, 711A7v1, 711A7v2, 715A2v1, 715A2v2]

many of these have one partner on a high numbered scaffold. These scaffolds

are less reliable and may be haplotypic to the genome assembly i.e. alleles.

CYP72D2 has two entries because one entry has exon 1 and the other has exons 2-5.

We believe this is one gene, but cannot prove it yet.

The sum of 310 genes + 203 pseudogene sequences + 52 possible alleles +

One extra entry for 72D2 = 566 P450 Sequences found in the Populus genome data.

Sequences thought to derive from the recent genome duplication will be shaded

gray, but this is still in progress.

Arabidopsis Rice Populus

synonyms ATG number

CYP51G1 CYP51A2 At1g11680 CYP51G1 51G1

CYP51G2 CYP51A1 At2g17330 CYP51G3 51G5

CYP51G4P

CYP51H1

CYP51H2P

CYP51H3

CYP51H4

CYP51H5

CYP51H6

CYP51H7

CYP51H8

CYP51H9

CYP71A12 At2g30750

CYP71A13 At2g30770

CYP71A14 At5g24960

CYP71A15 At5g24950

CYP71A16 At5g42590

CYP71A17P

CYP71A18 At1g11610

CYP71A19 At4g13290

CYP71A20 At4g13310

CYP71A21 At3g48320

CYP71A22 At3g48310

CYP71A23 At3g48300

CYP71A24 At3g48290

CYP71A25 At3g48280

CYP71A26 At3g48270

CYP71A27P At4g20240a

CYP71A28 At4g20240b

CYP71B2 At1g13080

CYP71B3 At3g26220

CYP71B4 At3g26280

CYP71B5 At3g53280 71B38

CYP71B6 At2g24180 71B39P

CYP71B7 At1g13110 71B40v1

CYP71B8 At5g35715 71B40v2

CYP71B9 At2g02580 71B41

CYP71B10 At5g57260 71B41-de1b

CYP71B11 At5g25120 71B42P

CYP71B12 At5g25130 71B43P

CYP71B13 At5g25140 71B44P

CYP71B14 At5g25180 71B45P

CYP71B15 PAD3 At3g26830

CYP71B16 At3g26150

CYP71B17 At3g26160

CYP71B18

CYP71B19 At3g26170

CYP71B20 At3g26180

CYP71B21 At3g26190

CYP71B22 At3g26200

CYP71B23 At3g26210

CYP71B24 At3g26230

CYP71B25 At3g26270

CYP71B26 At3g26290

CYP71B27 At1g13070

CYP71B28 At1g13090

CYP71B29 At1g13100

CYP71B30P At3g53290

CYP71B31 At3g53300

CYP71B32 At3g53305

CYP71B33

CYP71B34 At3g26300

CYP71B35 At3g26310

CYP71B36 At3g26320

CYP71B37 At3g26330

CYP71B38 At3g44250

CYP71C12

CYP71C13P

CYP71C14

CYP71C1

CYP71C16

CYP71C17

CYP71C18

CYP71C19

CYP71C20

CYP71C21

CYP71C22P

CYP71C23P

71D22

71D22P

71D23P

71D24P

71D25Pv1

71D25Pv2

71D26

71D27

71D28v1

71D28v2

71D29v1

71D29v2

71D29-se1[1]

71D29-se2[1]

71D29-se3[1]

71D30P

71D31P

71D32P

71D33P

71D34

71D35P

71D36Pv1

71D36Pv2

71D36Pv3

71D37P

71D38v1

71D38v2

71D38v2-de2b

71D38v2-de2c

71D39

71D40Pv1

71D40Pv2

71D41

71D42

71D43

71D44

71D45P

71D46P

71D53P

CYP71E4

CYP71E5

CYP71E6

CYP71K2P

CYP71K3

CYP71K4

CYP71K5

CYP71K6

CYP71K7P

CYP71K8

CYP71K9

CYP71K10

CYP71K11

CYP71K12

CYP71K13P

CYP71P1

CYP71P2P

CYP71Q1

CYP71Q2

CYP71Q3P

CYP71Q4P

CYP71R1

CYP71R2P

CYP71R3

CYP71S1

CYP71S2

CYP71T1

CYP71T2

CYP71T3

CYP71T4

CYP71T5

CYP71T6

CYP71T7

CYP71T10P

CYP71U1P

CYP71U2

CYP71U3

CYP71V1

CYP71V2

CYP71V3

CYP71V4

CYP71V5

CYP71V6P

CYP71W1

CYP71W2P

CYP71W3

CYP71W4

CYP71W5P

CYP71W6P

CYP71X1P

CYP71X2

CYP71X3

CYP71X4

CYP71X5

CYP71X6

CYP71X7

CYP71X8

CYP71X9P

CYP71X10

CYP71X11

CYP71X12

CYP71X13P

CYP71X14

CYP71X15

CYP71X16

CYP71X17P

CYP71Y1

CYP71Y2P

CYP71Y3

CYP71Y4