\./ 1990 Oxford University Press

3632 Nucleic Acids Research, Vol. 18, No. 12

Nucleotide sequence of a pseudogene for pea phytochrome reminiscent of an incorrect splicing event Naoki Sato Department of Botany, Faculty of Science, University of Tokyo, Hongo, Bunkyo-ku, Tokyo 113, Japan EMBL accession no. X52992

Submitted May 23, 1990

and ended with an AG dinucleotide. This suggests that the deletion can be a result of an adventitious incorrect splicing of phy transcript and a subsequent reverse transcription and integration into the genome. The 392 bp deletion was not an artefact of cloning, since the presence of the 2.7 kbp Hindll fragment which contains this site of deletion was confirmed by genomic Southern hybridization (not shown). The homology between the K3 and K2 sequences was 90%.

The pseudogene for phytochrome (phyP) in Pisum sativum was originally cloned as a 15 kbp BamHI fragment in XEMBL3 (K3). A 4.0 kbp EcoRI-BamHI fragment was subcloned in pBluescript SK+ (pK3EI). The DNA region which hybridized with pA609L, a pea phy cDNA clone (1), was sequenced. The nucleotide sequence of the clone K3 is shown in parallel with that of the clone K2, a genomic phy clone. The pseudogene contained a partial gene sequence homologous to the latter half of the exon 2 of phy, starting from the nucleotide 1222 and extending to the nucleotide 2045. In addition to several substitutions and two small deletions, a striking feature of the K3 sequence was the lack of a 392 bp sequence of K2, which began with a GT dinucleotide I

K3

I

REFERENCE 1. Sato,N. (1988) Plant Mol. Biol. 11, 697-710.

I

I

I

I

I

I

TTCATGTTTTAGTGGAAGAAGAAGTCAGTAGATTGTTGGTAAACAAAGGAAGACAAAGTTTAATTTTGTTTTAATCTCTAACTGTTTCAGTGGAAGAAGA

L

K3 AGCCACATGATTTTACATGTTAGAAAAACCCACTAGAGAMGAATATCATGCGCACACAGACGTTGTTGTGTGATATGTTGATGCGAGATGCACCCTTAGG

100

200

N222

K3 TATTGTATCACAAAACCATAATATAATGGATCTA----------- GGATTGCATTCTTCTACAGAAACAAGTTATGGTTATTTGGAGTGACACCGACT K2 **************G**C****************GTGAAAATGTGATG**GC****C****T**T********************A****C**********

287

K3 AGATCTCAAATACAAGAGATACTTTATGAATGTTTAGGTATCACACAGATTCGACAGGTTTTAGTACAGATAGTTTGTCGGATGCAG-GTTTCCAGGGG K2 GA*******T**AG***************G****C*GA******T********A********G********C**C*************G***********

386

K3 CTCTTTCTCTTAGTGATACTGTATGTGGAATGGAAACTGTTCGAATAACTTCAAAAGACACAGTTTTCTGGTTTAG-----------GTCTTT K2 *********************************C*G*****A******************T***********..*;GTCGAC...TTGACAG*****C 1565 1958

468

K3

568

K2

TGGTTGGCAAAGTTATTGAAAAATATTTACTCACCCTGGTTGAGGATTCTTCAACTGATATTATCAAAAAGATCTCAACTTTTTMAATATATATGCTAA C*******G***C*****G****C**C**********************************AG****G*************/*GGCACTGCAGGgtatgec

K3 CTCAGCTTGCCAACATGTCATGCCACGTCGCCAAGTTAAC

2045



608