Molecular Detection, Phylogenetic Analysis, and Identification of Transcription Motifs in Feline Leukemia Virus from Naturally Infected Cats in Malaysia

Table 2

Predicted transcription binding motifs found within the LTR-gag sequence of Malaysian FeLV isolates.

Motifs	Sequence	Seq length	Coverage	Occurrence in local sequence	Occurrence in reference FeLV
NF-GMa	GAGGTTTCAT	10	523–532	All local seq except UPM08	FeLV-Rickard; FeLV-FAIDs
E1A-F	CGGATGT	7	521–527	UPM08	NA
E1A-F	CGGATGT	7	70–76	UPM18	NA
ELP	CAAGGTC	7	523–527	UPM03, 14, 18, 20	NA
Sp1	GGGGCTAGG	7	521–527	UPM03, 18, 20	NA
CEBPbeta	CTGGAAA	7	387–393	UPM18, 20	NA
Krox-20/WT1I-del2	CGCCCCCGC	9	374–382	All local seq	FeLV-Rickard; FeLV-FAIDs
E2F	TTTTGGCGG	9	334–342	UPM03, 14, 18, 20	FeLV-Rickard; FeLV-FAIDs
BAF1	TCCTTGTATACG	12	301–312	All except UPM03, 14, 18, 20	NA
BAF1	TCCTTGTATACG	12	158–169	All local seq	NA
AP-2	CCCAACCG	8	243–250	All local seq	FeLV-Rickard; FeLV-FAIDs
AP-2	CCCAACCG	8	59–66	All local seq except UPM17	FeLV-Rickard; FeLV-FAIDs
AP-2	CCCAACCG	8	58–65	UPM03, 14, 18, 20, 25	NA
AP-2	CCCAACCG	8	4 to 11	All except UPM03, 14	NA
AP-2	CCCAACCG	8	3 to11	All local seq	FeLV-Rickard
GCF	CCGCCCC	7	93–99	All local seq	FeLV-Rickard, FeLV-FAIDs
GCF	CCGGCGC	7	64–70	All local seq except UPM03, UPM 14	NA
GCF	GCGCGCC	7	26–32	UPM27	NA
HNF-3	TGTTTGC	7	129–135	All local seq except UPM06	NA
PEA3	GCGGAAGT	8	69–76	UPM18	NA
TBP	TATAAAA	7	39–45	All local seq	FeLV-Rickard, FeLV-FAIDs
TFIIF-beta	TATAAAA	7	39–45	All local seq	FeLV-Rickard, FeLV-FAIDs
TRF	TATAAAA	7	39–45	All local seq	FeLV-Rickard, FeLV-FAIDs
TFIID	TATAAAA	7	39–45	All local seq	FeLV-Rickard, FeLV-FAIDs
TFIID	CTTCTCGC	8	10 to 17	UPM03, 14, 20	NA
MEP-1	TATAAAA	7	23–29	All local seq except UPM03, 14, 18, 20	FeLV-Rickard
MBF-I	TATAAAA	7	23–29	All local seq except UPM03, 14, 18, 21	FeLV-Rickard
MTF-1	TATAAAA	7	23–29	All except UPM03, 14, 18, 22	FeLV-Rickard

NA: not applicable or not present; seq: sequences.