Table 4B: Intron Type Data [Expanded View]

query: SELECT phylo,cell_loc,from_gene,rna_class,accession,structure,tax_id,organism,comment,site_pos,seq_size,seq_nbr,gr_id FROM subint WHERE phylo LIKE '%Lecanora%' AND cell_loc LIKE '%Nucleus%' AND from_gene LIKE '%16S%' AND rna_class LIKE '%I%' AND available = 'Y' AND ready = 'Y' AND ( percentage > 89 OR percentage = -1 OR seq_size = -1 ) ORDER BY phylo,cell_loc,from_gene,site_pos,rna_class,seq_nbr,organism

Phylogeny			Genus	L	EX	RC	Org	Acc	IP	Struct.	Comment
Eukaryota	Fungi/Metazoa group	Fungi	Biatoridium	N	16S	I	Biatoridium monasteriense	AY640988	934
			Calicium	N	16S	I	Calicium tricolor	L37733	392
			Cetradonia	N	16S	I	Cetradonia linearis	AY648095	114
									497
									516
									989
									1199
			Cladia	N	16S	I	Cladia retipora	U64681	989
			Cladonia	N	16S	I	Cladonia arbuscula	AY170793	1516
								AY170807	1516
								AY170816	1516
								AY170815	1516
								AY170812	1516
								AY170811	1516
								AY170810	1516
								AY170806	1516
								AY170795	1516
								AY170794	1516
								AY170808	1516
								AY170809	1516
								AY170813	1516
								AY170814	1516
								AY170817	1516
							Cladonia gracilis	AY575023	788
								AY575022	788
								AY575025	788
								AY575024	788
								AY575028	940
								AY575029	940
								AY575030	940
								AY575031	940
							Cladonia grayi	Z14026	1046	a.I1
							Cladonia grayi	Z14026	1516	a.I1
							Cladonia merochlorophaea	Z14025	1046	a.I1	Formerly Cladonia merochlorophaea Asah
									1210	a.I1	Formerly Cladonia merochlorophaea Asah
									1389	a.I1	Formerly Cladonia merochlorophaea Asah
									1516	a.I1	Formerly Cladonia merochlorophaea Asah
							Cladonia mitis	AY170798	1516
								AY170799	1516
								AY170800	1516
								AY170801	1516
								AY170802	1516
								AY170803	1516
								AY170804	1516
								AY170805	1516
								AY170819	1516
								AY170820	1516
								AY170796	1516
								AY170797	1516
								AY170818	1516
							Cladonia rangiferina	AY575026	788
								AY575027	788
								AY575033	940
								AY575034	940
								AY575032	940
						IE	Cladonia merochlorophaea	Z14025	1199		Formerly Cladonia merochlorophaea Asah
			Gymnoderma	N	16S	I	Gymnoderma coccocarpum	AF523362	114
									497		intron in variable region ca. E. coli position 497
									516
									788
									1046
									1199
									1210
			Lecanora	N	16S	I	Lecanora allophana		940		LIT: Curr. Genet. 35(5):536-541 (1999).
Lecanora dispersa	L37734	114					a.I1
		287					a.I1
		516					a.I1
		789					a.I1
		1046					a.I1
		1210					a.I1
		1516					a.I1
Rhizoplaca	N	16S	I	Rhizoplaca chrysoleuca	AY530888	114
						287
						788
						940
						1210
					AY530881	940
					AY530881	1210
					AY530880	940
					AY530880	1210
					AY530882	940
					AY530882	1210
					AY530879	940
					AY530879	1210
					AY509792	1516
					AY509796	1516
					AY509793	1516
					AY509794	1516
					AY509795	1516
				Rhizoplaca huashanensis	AY530885	114
						287
						516
						1516
				Rhizoplaca melanophthalma	AY509791	1516
				Rhizoplaca peltata	AY530887	516
				Rhizoplaca peltata	AY530887	940
				Rhizoplaca subdiscrepans	AY509804	1516
					AY509805	1516
					AY509789	1516
Scoliciosporum	N	16S	I	Scoliciosporum umbrinum	AY641006	287
Scoliciosporum	N	16S	I	Scoliciosporum umbrinum	AY641006	516
Strangospora	N	16S	I	Strangospora pinicola	AY641010	788
					AY641010	935
					AY641011	788
					AY641011	935
Mycoblastus	N	16S	I	Mycoblastus sanguinarius	DQ782879	940
						1199		misannotated
						1389
Ahtiana	N	16S	I	Ahtiana sphaerosporella	AF141859	1516
Arctocetraria	N	16S	I	Arctocetraria nigricascens	AF254628	1516
Asahinea	N	16S	I	Asahinea chrysantha	AF451766	1516
Asahinea	N	16S	I	Asahinea chrysantha	AF451767	1516
Bryoria	N	16S	I	Bryoria fuscescens	AF451736	1516
Cavernularia	N	16S	I	Cavernularia lophyrea	AF141367	1516		possibly IP 1521
Cavernularia	N	16S	I	Cavernularia lophyrea	AF115757	1516		possibly IP 1521
Cetraria	N	16S	I	Cetraria arenaria	AF115758	1516		possibly IP 1521
				Cetraria islandica	AF139035	0		IP 1516? (possibly 1521)
						940		LIT: Curr. Genet. 35(5):536-541 (1999).
					AF072225	1516		possibly IP 1521
				Cetraria nigricans	AF254629	1516
				Cetraria nigricans	AF254630	1516
				Cetraria odontella	AF228304	1516
					AF228303	1516
					AF228285	1516
Cetraria ericetorum	N	16S	I	Cetraria ericetorum subsp. ericetorum	AF139033	0		IP 1516? (possibly 1521)
				Cetraria ericetorum subsp. ericetorum	AF228290	1516		possibly IP 1521
				Cetraria ericetorum subsp. reticulata	AF139034	0		IP 1516? (possibly 1521)
Cetraria islandica	N	16S	I	Cetraria islandica subsp. antarctica	AF254627	1516
				Cetraria islandica subsp. antarctica	AF228293	1516
				Cetraria islandica subsp. crispiformis	AF228294	1516
				Cetraria islandica subsp. crispiformis	AF228295	1516
				Cetraria islandica subsp. islandica	AF228296	1516
					AF228297	1516
					AF228299	1516
					AF228298	1516
Dactylina	N	16S	I	Dactylina arctica	AF115760	1516		possibly IP 1521
Flavoparmelia	N	16S	I	Flavoparmelia caperata	AY584663	788
Flavoparmelia	N	16S	I	Flavoparmelia caperata	AY584663	943
Hypogymnia	N	16S	I	Hypogymnia physodes		940		LIT: Curr. Genet. 35(5):536-541 (1999).
					AF115761	1516		possibly IP 1521
					AF141368	1516		possibly IP 1521
Letharia	N	16S	I	Letharia columbiana	AF221063	287
Melanelia	N	16S	I	Melanelia hepatizon	AF141369	1516		possibly IP 1521
Nephromopsis	N	16S	I	Nephromopsis ahtii	AF404123	1516		5' exon not present; genbank synonym: Tuckneraria ahtii
				Nephromopsis komarovii	AF451779	1516
				Nephromopsis laureri	AF451786	1516		genbank synonym: Tuckneraria laureri
				Nephromopsis stracheyi	AF451785	1516
Parmelia	N	16S	I	Parmelia ernstiae	AF412309	1516
				Parmelia ernstiae	AF412310	1516
				Parmelia saxatilis		940		LIT: Curr. Genet. 35(5):536-541 (1999).
					AF451772	1516
					AF141370	1516		possibly IP 1521
					AF451770	1516
					AF410837	1516
					AF451771	1516
					AF410836	1516
					AF410835	1516
Parmotrema	N	16S	I	Parmotrema tinctorum	AY584659	497		intron in variable region ca. E. coli position 497
						516
						943
						1046
Pseudephebe	N	16S	I	Pseudephebe pubescens	AF451738	1516
Usnea	N	16S	I	Usnea filipendula		940		LIT: Curr. Genet. 35(5):536-541 (1999).
				Usnea hirta		940		LIT: Curr. Genet. 35(5):536-541 (1999).
				Usnea rigida		940		LIT: Curr. Genet. 35(5):536-541 (1999).
				Usnea subfloridana		940		LIT: Curr. Genet. 35(5):536-541 (1999).
Vulpicida	N	16S	I	Vulpicida juniperina		940		LIT: Curr. Genet. 35(5):536-541 (1999).
				Vulpicida pinastri	AF139031	1516		IP 1516? (possibly 1521)
				Vulpicida pinastri	AF072239	1516		possibly IP 1521
Xanthoparmelia	N	16S	I	Xanthoparmelia semiviridis	AF451746	1516		synonym Chondropsis semiviridis
Amandinea	N	16S	I	Amandinea punctata	AJ549800	788
Amandinea	N	16S	I	Amandinea punctata	AJ549800	1049
Buellia	N	16S	I	Buellia aethalea	AJ549801	114
						788
						1516
Diplotomma	N	16S	I	Diplotomma alboatrum	AJ549802	287
						300
						497		intron in variable region ca E.coli position 497
						516
						788
						940
						1199
						1210
						1516
				Diplotomma epipolium	AJ506969	287
						300
						516
						788
						940
						1199
						1210
						1516
Hyperphyscia	N	16S	I	Hyperphyscia adglutinata	AJ549803	287
						516
						940
						1049
						1210
						1516
Phaeophyscia	N	16S	I	Phaeophyscia ciliata	AF224456	1506
					AF224456	1516
					AF224448	1506
					AF224448	1516
					AF224447	1506
					AF224447	1516
					AF224457	1506
					AF224457	1516
					AF224455	1506
					AF224455	1516
					AF224354	1506
					AF224354	1516
					AF224450	1506
					AF224450	1516
					AF224454	1506
					AF224454	1516
				Phaeophyscia constipata	AF224374	1506
				Phaeophyscia constipata	AF224374	1516
				Phaeophyscia endococcina	AF224444	1506
				Phaeophyscia endophoenicea	AF224445	1506
				Phaeophyscia hispidula	AY648103	287
						788
						1199
						1210
						1384
					AY303138	1506		5' end of intron missing from GB entry
					AY303138	1516
				Phaeophyscia nigricans	AF224375	1516
				Phaeophyscia orbicularis	AJ549804	114
						287
						299
					AJ549805	788
						943
						1199
						1210
						1384
						1506
						1516
					AF224452	1506
					AF224452	1516
					AF224453	1506
					AF224453	1516
					AF224458	1506
					AF224458	1516
					AF224451	1506
					AF224451	1516
					AF224459	1506
					AF224459	1516
					AF224460	1506
					AF224460	1516
					AF224449	1506
					AF224449	1516
				Phaeophyscia sciastra	AF224446	1506
Physcia	N	16S	I	Physcia adscendens	AF224422	1516
					AF224423	1516
					AF224430	1516
				Physcia aipolia	AY648096	114
						516
						788
						943
					AY648097	114
						516
						788
						943
					AY648101	516
						788
						943
					DQ782876	516
					DQ782876	788
					AY648099	788
						1049
						1199
						1210
					AF224395	1516
					AY303133	1516
					AF224383	1516
					AY303132	1516
					AF224431	1516
					AY303135	1516
					AF224432	1516
					AF224393	1516
					AF224396	1516
					AF224398	1516
					AF224392	1516
					AF224394	1516
					AF224397	1516
					AY303136	1516
					AF224390	1516
					AF224391	1516
				Physcia albinea	AF224433	1516
				Physcia alnophila	AF224381	1516
					AF224380	1516
					AF224434	1516
					AF224382	1516
				Physcia biziana	AF224417	1516
				Physcia caesia	AY648098	114
						516
						788
						1210
					AY648100	516
						788
						943
						1049
						1210
					AF224384	1516
					AF224437	1516
					AY498690	1516
					AF224385	1516
					AF224436	1516
					AY303131	1516
					AY303134	1516
					AF224386	1516
					AF224389	1516
					AF224388	1516
					AF224435	1516
					AF224379	1516
					AF224438	1516
AF224387	1516
Physcia dimidiata	AJ506970	516
	AJ506970	788
	AJ506970 AJ507615	1199		implicit from annotations
	AJ507615	1210
Physcia dubia	AF224401	1516
	AF224439	1516
	AF224418	1516
	AF224440	1516
	AF224400	1516
	AF224402	1516
	AF224403	1516
	AF224413	1516
	AF224412	1516
	AF224411	1516
	AF224421	1516
	AF224419	1516
	AF224420	1516
	AF224399	1516
Physcia leptalea	AF224441	1516
	AF224428	1516
	AF224429	1516
Physcia magnussonii	AF224376	1516
Physcia magnussonii	AF224377	1516
Physcia phaea	AF224378	1516
Physcia stellaris	AY648102	516
		788
		1049
		1210
	AF224407	1516
	AF224410	1516
	AF224405	1516
	AF224409	1516
	AF224442	1516
	AY303137	1516
	AF224404	1516
	AF224406	1516
	AY498689	1516
	AF224408	1516
Physcia undulata	AJ549806	114
		516
		788
		1389
		1506
		1516
Physcia dimidiata	N	16S	I	Physcia dimidiata var. dimidiata	AF224415	1516
				Physcia dimidiata var. dimidiata	AF224416	1516
				Physcia dimidiata var. ornata	AF224414	1516
Physcia tenella	N	16S	I	Physcia tenella var. marina	AF224426	1516
				Physcia tenella var. marina	AF224424	1516
				Physcia tenella var. tenella	AF224427	1516
				Physcia tenella var. tenella	AF224425	1516
Rinodina	N	16S	I	Rinodina gennarii	AJ549808	287
						943
						1516
				Rinodina oxydata	AJ506971	114
						497
						516
						940
						1199
						1389
						1516
Tornabea	N	16S	I	Tornabea scutellifera	AJ549810	788
						943
						1199
						1516
Protoblastenia	N	16S	I	Protoblastenia calva	AY548822	788
				Protoblastenia calva	AY548821	788
				Protoblastenia calvella	AY425647	1210
				Protoblastenia calvella	AY425646	1210
				Protoblastenia laeta	AY548818	1210
					AY425653	1210
					AY425652	1210
					AY425651	1210
					AY425650	1210
				Protoblastenia lilacina	AY425629	1210
				Protoblastenia rupestris	AY548820	788
				Protoblastenia siebenhaariana	AY425627	1199
Bacidia	N	16S	I	Bacidia schweinitzii	DQ782884	287
						497		intron in variable region ca. E. coli position 497
						516
Biatora	N	16S	I	Biatora efflorescens	AJ247554	1516
				Biatora fallax	AJ247526	1516
					AJ247527	1516
					AJ247548	1516
				Biatora helvola	AJ247546	1516
					AJ247544	1516
					AJ247547	1516
					AJ247543	1516
					AJ247550	1516
					AJ247542	1516
					AJ247518	1516
					AJ247514	1516
					AJ247516	1516
					AJ247556	1516
					AJ247557	1516
					AJ247517	1516
					AJ247515	1516
					AJ247541	1516
					AJ247545	1516
					AJ247549	1516
				Biatora ocelliformis	AJ247521	1516
				Biatora ocelliformis	AJ247520	1516
				Biatora pseudohelvola	AJ247571	1516
					AJ247572	1516
					AJ247558	1516
					AJ247570	1516
				Biatora sphaeroidiza	AJ247553	1516
					AJ247551	1516
					AJ247552	1516
				Biatora toensbergii	AJ247519	1516

Comparative RNA Web Site and Project The Gutell Lab

Table 4B: Intron Type Data [Expanded View]