Genome-wide comparative analysis of the IQD gene families in Arabidopsis thaliana and Oryza sativa

Abel, Steffen; Savchenko, Tatyana; Levy, Maggie

doi:10.1186/1471-2148-5-72

BMC Ecology and Evolution

Table 1 The IQD gene family of Arabidopsis thaliana

From: Genome-wide comparative analysis of the IQD gene families in Arabidopsis thaliana and Oryza sativa

Gene Identifier	REFSEQ Accession	Protein ID	cDNA Accession^a Protein ID	Expression^b	Protein Name^c	Size (aa)	Mass (kD)	IP	Predicted_Location^d
									PSORT	TargetP
At1g01110	NM_099993	NP_563618	AY085363*	A C D	IQD18	527	59.2	10.3	N	?
At1g14380	NM_101305	NP_563950	BT005935A AO64870	A B C D	IQD28	664	72.8	9.7	N	?
At1g17480	NM_101610	NP_173191	AY702665	A C D	IQD7	370	41.0	10.5	?	?
At1g18840	NM_101741	NP_173318	AY702666	A B C D	IQD30	572	62.7	9.2	N	?
At1g19870	NM_101842	NP_564097	BT001081A AN46862	A B C D	IQD32	794	86.8	5.2	N	C 0.65/4
At1g51960	NM_104077	NP_175608	-	-	IQD27	351	39.3	10.1	?	?
At1g72670	NM_105926	NP_177411	BT010652A AR07516	A C D	IQD8	414	45.9	10.3	N	?
At1g74690	NM_106127	NP_177607	AY128860A AM91260	A C D	IQD31	587	65.2	9.6	?	?
At2g02790	NM_126334	NP_178382	-	A C	IQD29	636	69.8	9.6	N	C 0.71/4
At2g26180	NM_128176	NP_180187	BX818988	C D	IQD6	416	46.9	10.5	N	?
At2g26410	NM_128198	NP_180209	BX840898	A	IQD4	527	58.3	10.3	?	?
At2g33990	NM_128950	NP_180946	AU237877 AV557487	A D	IQD9	249	28.5	10.8	N	?
At2g43680	NM_180068	NP_850399	BT008408A AP37767	A B	IQD14	668	74.3	11.3	?	?
At3g09710	NM_111805	NP_187582	AY827468	A C D	IQD1	454	50.5	10.4	N	?
At3g15050	NM_112367	NP_188123	BX825987	B C D	IQD10	259	29.6	10.3	?	C 0.91/1
At3g16490	NM_112520	NP_188270	BX824788	A D	IQD26	398	48.7	10.1	?	?
At3g22190	NM_113116	NP_188858	-	A	IQD5	400	44.5	10.1	N	?
At3g49260	NM_114785	NP_566917	BT000602A AN18171	A B D	IQD21	471	52.1	10.0	N	?
At3g49380	NM_114798	NP_190507	-	-	IQD15	352	40.8	10.2	N	?
At3g51380	NM_114997	NP_190706	BX838271 (FL-EST)	A D	IQD20	103	11.8	12.4	M	M 0.80/2
At3g52290	NM_115089	NP_190797	BT005639A AO64059	A B C D	IQD3	430	48.1	10.6	?	?
At3g59690	NM_115831	NP_191528	BT001176A AN65063	A D	IQD13	517	58.5	10.9	?	?
At4g00820	NM_116308	NP_567191	BX826435	A C D	IQD17	534	60.0	10.3	?	M 0.38/5
At4g10640	NM_117132	NP_192802	BT010145A AQ22614	A D	IQD16	423	48.7	10.1	N	?
At4g14750	NM_117560	NP_193211	BX827601	A C D	IQD19	387	43.9	9.7	?	?
At4g23060	NM_118435	NP_194037	AY702664	A B C D	IQD22	543	60.3	10.2	?	M 0.50/4
At4g29150	NM_119059	NP_194644	BT003896A AO41944	A D	IQD25	383	41.4	10.7	?	M 0.78/3
At5g03040	NM_120382	NP_568110	AY143972A AN28911	A B C D	IQD2	461	50.5	10.6	N	C 0.55/3
At5g03960	NM_120478	NP_196016	BX829656	-	IQD12	403	46.0	10.6	?	M 0.76/2
At5g07240	NM_120806	NP_196341	BT006056A AP04041	A C D	IQD24	401	45.3	10.3	?	M 0.54/4
At5g13460	NM_121349	NP_196850	AY128736A AM91136	C D	IQD11	443	50.8	10.0	N	?
At5g35670	NM_122958	NP_568529	AK128736B AD43467	C D	IQD33	442	49.5	8.5	?	M 0.47/5
At5g62070	NM_125600	NP_201013	AY143917A AN28856	A C D	IQD23	403	44.3	10.5	N	C 0.51/5

^a Full-length cDNAs (asterisk denotes a cDNA clone that is likely 5'-truncated).
^b Additional evidence for IQD gene expression provided by (A) whole-genome array [105], (B) community microarray data [94], (C) Massively Parallel Signature Sequencing (MPSS, [106]), (D) EST clones.
^c Nomenclature of IQD genes is arbitrary. Levy et al. [37] cloned IQD1 and reported closely related genes IQD2-IQD6. The designation of IQD7-IQD33 is based on the phylogenetic analysis presented in Figure 1a.
^d PSORT predictions: N (nucleus), C (chloroplast), M (mitochondrion). TargetP predictions: values indicate score (0.00 – 1.00) and reliability class (1–5; best class is 1).

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