GABBR1 has a HERV-W LTR in its regulatory region – a possible implication for schizophrenia

Biology Direct

Table 1 Regulatory regions for schizophrenia-related genes (as annotated by Genecards[2]) that have a full or partial match with the LTR of HERV-W

Gene list	chr	ltrstart	ltrstop	e-value	Score
GABBR1	chr6	29526020	29526766	0.0	1042
MAPK10	chr4	86878290	86877559	0.0	834
MAPK10	chr4	86878341	86877841	1,00E-160	630
DLD	chr7	107977734	107978228	0.0	706
NRCAM	chr7	107977734	107978228	0.0	706
NR3C2	chr4	148920214	148920590	1,00E-115	464
ATM	chr11	107851843	107852136	2,00E-106	430
SLC18A1	chr8	20016820	20017144	5,00E-83	344
SLC18A1	chr8	20017040	20017144	7,00E-12	82
FAAH	chr1	46856820	46856990	2,00E-44	202
CDC25A	chr3	48377262	48377349	1,00E-27	140
MAP4	chr3	48377349	48377262	1,00E-27	140
SHISA5	chr3	48377262	48377349	1,00E-27	140
MAP2	chr2	210171660	210171694	2,00E-05	58
ACTB	chr7	5832898	5832925	0.003	50

The regulatory regions were taken from Thurman et al. [16]. The LTR sequence ranges (ltrstart, ltrstop), evalues and scores were calculated using the Blastn program [18]. A large fraction of the regulatory regions identified by Thurman et al. [16] were associated with more than one gene and most genes were also associated with more than one regulatory region.

ISSN: 1745-6150