Phylogeny and expression of carbonic anhydrase-related proteins

Aspatwar, Ashok; Tolvanen, Martti EE; Parkkila, Seppo

doi:10.1186/1471-2199-11-25

BMC Molecular Biology

Table 1 Details of the carbonic anhydrase-related protein (CARP) sequences used in this study

From: Phylogeny and expression of carbonic anhydrase-related proteins

Group	Organism	Scientific Name	CARPs	Acc. No./ID	Length (aa)	Description¹
	Cow	Bos taurus	VIII	NP_001077159	290	NCBI_RefSeq
			X	A0JN41	328	Uniprot
			XI	NP_783648.1	328	NCBI_RefSeq
	Marmoset	Callithrix jacchus	VIII	-	290	UCSC_BLAT
			X	-	328	UCSC_BLAT
			XI	A6MLD1	321	Uniprot _UCSC_BLAT
	Dog	Canis familiaris	VIII	XP_544094.2	290	NCBI_RefSeq
			X	XP_866307.1	328	Ensembl_UCSC_BLAT
			XI	XP_852031.1	328	NCBI_RefSeq
	Guinea Pig	Cavia porcellus	VIII	ENSCPOP00000017966	256	Ensembl
			X	ENSCPOP00000013970	328	Ensembl
			XI	ENSCPOP00000011461	332	Ensembl
	Armadillo	Dasypus novemcinctus	X	ENSDNOP00000008341	327	Ensembl
	Horse	Equus caballus	VIII	XP_001496523.1	290	NCBI_RefSeq
			X	XP_001503286.2	328	NCBI_RefSeq
			XI	ENSECAP00000015876	278	Ensembl
	Cat	Felis catus	X	ENSFCAP00000002102	326	Ensembl_UCSC_BLAT
			XI	ENSFCAP00000006798	265	Ensembl
	Human	Homo sapiens	VIII	P35219	290	Uniprot
			X	Q9NS85	328	Uniprot
			XI	O75493	328	Uniprot
	Mouse	Mus musculus	VIII	P28651	291	Uniprot
			X	P61215	328	Uniprot
			XI	O70354	328	Uniprot
	Macaque	Macaca mulatta	VIII	XP_001088977.1	290	NCBI_RefSeq
			X	XP_001101492.1	334	NCBI_RefSeq
			XI	XP_001113730.1	328	RefSeq_UCSC_BLAT
	Rhesus Monkey	Macaca fascicularis	X	Q9N085	328	Uniprot
	Mouse Lemur	Microcebus murinus	VIII	ENSMICP00000001089	286	Ensembl
Mammals	Opossum	Monodelphis domestica	VIII	ENSMODP00000010658	289	Ensembl_UCSC_BLAT
			X	ENSMODP00000015705	328	Ensembl_UCSC_BLAT
			XI	ENSMODP00000017625	332	Ensembl
	Microbat	Myotis lucifugus	VIII	ENSMLUP00000008230	275	Ensembl
	Pika	Ochotonidae princeps	VIII	ENSOPRP00000014387	290	Ensembl
	Platypus	Ornithorhynchus anatinus	VIII	ENSOANP00000008002	267	Ensembl
			X	ENSOANP00000003611	308	Ensembl_UCSC_BLAT
	Rabbit	Oryctolagus cuniculus	X	ENSOCUP00000002025	333	Ensembl
	Bushbaby	Otolemur garnettii	X	ENSOGAP00000004458	327	Ensembl
	Chimpanzee	Pan troglodytes	VIII	XP_519778.2	290	NCBI_RefSeq
			X	XP_001171455.1	328	NCBI_RefSeq
			XI	XP_001171520.1	328	RefSeq_UCSC_BLAT
	Sumatran Orangutan	Pongo abelii	VIII	-	290	UCSC_BLAT
			X	Q5R4U0	328	Uniprot
			XI	NP_001128968.1	328	NCBI_RefSeq
	Orangutan	Pongo pygmaeus	VIII	ENSPPYP00000020875	290	Ensembl
			X	ENSPPYP00000009287	328	Ensembl
			XI	ENSPPYP00000011415	328	Ensembl
	Rat	Rattus norvegicus	VIII	Q5PPN4	290	Uniprot
			X	EDM05681	319	NCBI_RefSeq
			XI	NP_783639	328	NCBI_RefSeq
	Pig	Sus scrofa	VIII	XP_001926916	291	NCBI_RefSeq_EST
			XI	Q866X6	331	Uniprot
	Tarsier	Tarsius syrichta	VIII	ENSTSYP00000009029	256	Ensembl
	Dolphin	Tursiops truncatus	VIII	ENSTTRP00000015250	256	Ensembl
			X	ENSTTRP00000001587	308	Ensembl
			XI	ENSTTRP00000007758	320	Ensembl
	Sheep	Ovis aries	XI	Q95203	328	Uniprot
	Anole Lizard	Anolis carolinensis	VIII	-	257	UCSC_BLAT
			X	-	321	UCSC_BLAT
			XI	ENSACAP00000015571	289	Ensembl
	Chicken	Gallus gallus	VIII	ENSGALP00000024873	283	Ensembl
			X	XP_415644.1	328	NCBI_RefSeq
	Zebra Finch	Taeniopygia guttata	VIII	ENSTGUP00000011522	258	Ensembl
			X	ENSTGUP00000009733	328	Ensembl
	Frog	Xenopus tropicalis	VIII	Q5M8Z5	282	Uniprot
			X	ENSXETP00000002773	321	Ensembl_UCSC_BLAT
			XI	-	303	UCSC_BLAT
	Zebrafish	Danio rerio	VIII	NP_001017571.1	281	NCBI_RefSeq
Other			Xa	NP_001032198.1	328	NCBI_RefSeq
vertebrates			Xb	XP_696967.2	308	NCBI_RefSeq
	Stickleback	Gasterosteus aculeatus	VIII	ENSGACP00000019684	281	Ensembl
			Xa	ENSGACP00000020102	323	Ensembl_UCSC_BLAT
			Xb	ENSGACP00000000619	328	Ensembl
	Rainbow trout	Oncorhynchus mykiss	VIII	Q5I2J1	281	Uniprot
	Medaka	Oryzias latipes	VIII	ENSORLP00000016815	281	Ensembl
	Fugu	Takifugu rubripes	VIII	ENSTRUP00000009702	282	Ensembl
			Xa	ENSTRUP00000007839	297	Ensembl_UCSC_BLAT
			Xb	ENSTRUP00000032938	328	Ensembl_UCSC_BLAT
	Pufferfish	Tetraodon nigroviridis	VIII	ENSTNIP00000005959	272	Ensembl
			Xa	ENSTNIP00000017020	328	Ensembl_UCSC_BLAT
	Lancelet	Branchiostoma lancelet	VIII	C3XTT7	256	Uniprot_UCSC_BLAT
			X	-	319	UCSC_BLAT
Invertebrates	Trichoplax	Trichoplax adhaerens	VIII	XP_002111595.1	348	NCBI_RefSeq
	Sea urchin	Strongylocentrotus purpuratus	VIII	XP_795365.2	312	NCBI_RefSeq

¹ The sources of the best protein sequences. NCBI, RefSeq, UniProt and Ensembl refer to the respective databases, and UCSC_BLAT refers to discovery of novel genes/exons using the UCSC genome browser and subsequent gene model building, as detailed in Materials and Methods. EST means that a further EST sequence was used to extend an incomplete genome sequence.

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ISSN: 1471-2199

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