Pig genome annotation: A Gene Wish List

A Wish List of Genes for Annotation (version 3.26)

(Matches to BACs by their Genome Locations Based on Pig Genome Build v.9 (Data Downloads as of Mar. 7, 2010 )

Info:

Purpose: Help users to find where to go from gene names to their genome locations/BACs in order to locate a starting spot in the pig genome to bring into Otterlace for annotations.
Methods: The gene locations are determined in 2 ways: Ensembl predictions and Blasts. Clones are sought based on their overlapping genome locations with that of your gene.
Terms: Finished BACs: A total of 811 "finished" clones that met the "golden standard" of finished sequencing quality. Unfinished clones: Out of 15,837 clones on the "unfinished clones" list, only 1,769 have been processed to have genome locations. FPC clones: 254K+ of those clones in the sequencing pipeline
Related links:

HINTS:

Owner/Status info: : Someone has this gene on their wish-list to annotate. : This gene is to be annotated. : This gene has been annotated (click to check for details - maybe only a gene variant is annotated. The ultimate annotator list is from Otterlace entries; This list only provides a working reference).
Additional info: : have orthologous gene information. : have refseq information. : details (click for more)
Ensembl Gene ID, Genome Locations, and BAC names are all hyper-linked to Ensembl database

( Go to genes whose symbol start with: 1, 5, 7, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z )
Search results:	Show Finished BAC Show unFinished BAC

User Gene List			Genome Location (Chr.:start-end)	Fell within Finished BACs (Contig, BACname, Chr.:Start-End)	Fell within Unfinished Clones (SeqName, Chr.:Start-End)
Symbol	Owner/ Status	Ensembl Gene ID	Genome Location (Chr.:start-end)	Fell within Finished BACs (Contig, BACname, Chr.:Start-End)	Fell within Unfinished Clones (SeqName, Chr.:Start-End)

ANKRD27		ENSSSCG00000002859	6:28442814-28503079
ANKRD28		ENSSSCG00000011194	13:2354507-2486951		CU466373,CH242-176K2,13:2325982-2492285 (Clone quality: bE176K2 on chr=13; Num_of_Contigs=1; )
ANKRD29		ENSSSCG00000003708	6:73821197-73863664
ANKRD31		ENSSSCG00000014079	2:73147027-73183150		CU915596,CH242-427N12,2:73144369-73211521 (Clone quality: bE427N12 on chr=2; Num_of_Contigs=5; )
ANKRD32		ENSSSCG00000014163	2:90690847-90724940
ANKRD33		ENSSSCG00000000231	5:15957758-15960053		CU457457,CH242-172O10,5:15953309-15977949 (Clone quality: bE172O10 on chr=5; Num_of_Contigs=16; )
ANKRD33B		ENSSSCG00000017124	16:77299142-77377432		CU570851,CH242-395J3,16:77276679-77435658 (Clone quality: bE395J3 on chr=16; Num_of_Contigs=1; )
ANKRD34B		ENSSSCG00000014124	2:78471509-78473053		CU856245,CH242-265A18,2:78420705-78489291 (Clone quality: bE265A18 on chr=2; Num_of_Contigs=3; )
ANKRD34C		ENSSSCG00000001772	7:54451043-54452632		CT827823,CH242-157K7,7:54404462-54469494 (Clone quality: bE157K7 on chr=7; Num_of_Contigs=4; )
ANKRD35		ENSSSCG00000006688	4:103527802-103545509
ANKRD37		ENSSSCG00000015798	15:43848819-43851851		CU571359,CH242-312E7,15:43844266-43854094 (Clone quality: bE312E7 on chr=15; Num_of_Contigs=3; )
ANKRD39		ENSSSCG00000008198	3:52076536-52088376		FP102542,CH242-108N5,3:52055736-52099463 (Clone quality: bE108N5 on chr=3; Num_of_Contigs=4; )
ANKRD40		ENSSSCG00000017560	12:23976973-23992345
ANKRD42		ENSSSCG00000014902	9:17402480-17514196
ANKRD43		ENSSSCG00000014286	2:123050104-123051831	CU407038,CH242-18J12,2:123020435-123138962 (Clone quality: bE18J12 on chr=2; Num_of_Contigs=6; )
ANKRD44		ENSSSCG00000016074	15:94553067-94595661
ANKRD45		ENSSSCG00000015491	9:108803442-108821777		FP089545,CH242-181N7,9:108784321-108877315 (Clone quality: bE181N7 on chr=9; Num_of_Contigs=5; )
ANKRD46		ENSSSCG00000006065	4:36789244-36832231		CU302269,CH242-262H19,4:36753081-36854158 (Clone quality: bE262H19 on chr=4; Num_of_Contigs=2; )
ANKRD46		location ⇒	4:36824478-36824810		CU302269,CH242-262H19,4:36753081-36854158 (Clone quality: bE262H19 on chr=4; Num_of_Contigs=2; )
ANKRD46		location ⇒	4:36826140-36826299		CU302269,CH242-262H19,4:36753081-36854158 (Clone quality: bE262H19 on chr=4; Num_of_Contigs=2; )
ANKRD46		location ⇒	4:36831873-36832376		CU302269,CH242-262H19,4:36753081-36854158 (Clone quality: bE262H19 on chr=4; Num_of_Contigs=2; )
ANKRD49		ENSSSCG00000014956	9:26974741-26981883		FP236710,CH242-260H20,9:26958266-26994295 (Clone quality: bE260H20 on chr=9; Num_of_Contigs=2; )
ANKRD5		ENSSSCG00000007063	17:19060974-19080520
ANKRD52		ENSSSCG00000000386	5:20565247-20578785		CU694915,CH242-453C18,5:20555037-20579943 (Clone quality: bE453C18 on chr=5; Num_of_Contigs=10; )
ANKRD53		ENSSSCG00000008324	3:65985410-65990389		CU855593,CH242-53L10,3:65980021-65998566 (Clone quality: bE53L10 on chr=3; Num_of_Contigs=46; )
ANKRD55		ENSSSCG00000016917	16:32763878-32863265
ANKRD56		ENSSSCG00000008985	8:61988845-61991244		CU856275,CH242-14N20,8:61965094-62022245 (Clone quality: bE14N20 on chr=8; Num_of_Contigs=5; )
ANKRD58		ENSSSCG00000012618	X:96467544-96468509	CU915797,CH242-68L3,X:96464267-96529567 (Clone quality: bE68L3 on chr=X; Num_of_Contigs=5; )
ANKRD6		ENSSSCG00000004322	1:60629214-60658640
ANKRD60		ENSSSCG00000007511	17:61027890-61037804	CR956359,CH242-256J18,17:60938475-61076184 (No clone quality info on bE256J18)
ANKRD61		ENSSSCG00000007593	3:4110947-4114759
ANKRD62		ENSSSCG00000007001	17:8212283-8258844
ANKRD7		ENSSSCG00000016623	18:26527623-26546635
ANKRD9		ENSSSCG00000002527	7:131302725-131303687		CU368601,CH242-517B9,7:131295899-131330174 (Clone quality: bE517B9 on chr=7; Num_of_Contigs=8; )
ANKS1A		ENSSSCG00000001534	7:35275441-35468073
ANKS1B		ENSSSCG00000000882	5:80180473-80350612
ANKS4B		ENSSSCG00000007850	3:22541018-22551594		CU928458,CH242-281E22,3:22534618-22565879 (Clone quality: bE281E22 on chr=3; Num_of_Contigs=10; )
ANKS6		ENSSSCG00000005378	1:252102885-252159561		CU302414,CH242-292K3,1:252070984-252182710 (Clone quality: bE292K3 on chr=1; Num_of_Contigs=2; )
ANKZF1		ENSSSCG00000016212	15:114261888-114269984		CU457453,CH242-470M7,15:114256624-114294054 (Clone quality: bE470M7 on chr=15; Num_of_Contigs=11; )
ANLN		ENSSSCG00000016658	18:36903523-36956864
ANO1		ENSSSCG00000012869	2:1637289-1672943		FP085516,CH242-270C7,2:1637041-1680225 (Clone quality: bE270C7 on chr=2; Num_of_Contigs=5; )
ANO10		ENSSSCG00000011296	13:22687450-22848973
ANO2		ENSSSCG00000000713	5:60646784-60708101
ANO3		ENSSSCG00000013339	2:31604395-31737090
ANO4		ENSSSCG00000000873	5:78789912-78943191
ANO4		ENSSSCG00000013340	2:31675129-31680088	CU468572,CH242-524G2,2:31513128-31727078 (Clone quality: bE524G2 on chr=2; Num_of_Contigs=6; )
ANO5		ENSSSCG00000013344	2:34559453-34641371
ANO6		ENSSSCG00000000804	5:72208598-72257972
ANP32D		ENSSSCG00000004471	1:91883020-91883241		CU074282,CH242-124C3,1:91840945-91977429 (Clone quality: bE124C3 on chr=1; Num_of_Contigs=2; )
ANP32E		ENSSSCG00000006659	4:102805869-102824806		CU468675,CH242-4P3,4:102793596-102826420 (Clone quality: bE4P3 on chr=4; Num_of_Contigs=11; )

Go to records:
1-49, 50-100, 101-150, 151-200, 201-250, 251-300, 301-350, 351-400, 401-450, 451-500, 501-550, 551-600, 601-650, 651-700, 701-750, 751-800, 801-850, 851-900, 901-950, 951-1000, 1001-1050, 1051-1100, 1101-1150, 1151-1200, 1201-1250, 1251-1300, 1301-1350, 1351-1400, 1401-1450, 1451-1500, 1501-1550, 1551-1600, 1601-1650, 1651-1700, 1701-1750, 1751-32

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$version: 3.26; Updates: Mar. 6, 2010; Apr. 20, 2010; Aug 21, 2010

Related publications:

Martien Groenen, Alan Archibald, Hirohide Uenishi, Christopher Tuggle, Yasuhiro Takeuchi, Max Rothschild, Claire Rogel-Gaillard, ... Denis Milan, Hendrik-Jan Megens, ... Zhi-Liang Hu, Sean J. Humphray, ... James M. Reecy, ..., Gary A. Rohrer, ... Shuhong Zhao, Jane Rogers, Carol Churcher & Lawrence B. Schook. (2012). Analyses of pig genomes provide insight into porcine demography and evolution. Nature, 491, 393-398 (15 November 2012).