Statistics: Genome Annotation

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Human Genome: Current Statistics -- Build 33

Summary of the GenBank source sequences, the contigs, and the features annotated on the sequence based on sequence information available on April 10, 2003. Also summarizes the objects on each non-sequence-based map in the MapViewer.

These statistics are based on the assembly and annotation process documented here.

See also the current release notes.

Statistics reports from these related resources are also available:

Resource	Scope
Cytogenetics	A cytogenetic resource of FISH-mapped, sequence-tagged clones
dbSNP	Database of SNPs and other genetic variation
LocusLink	Focal point for genes and associated information (fruit fly, human, mouse, rat, zebrafish)
RefSeq	NCBI Reference mRNAs and proteins for human, mouse, rat
UniGene	Human UniGene clusters
UniSTS	STS markers

GenBank source sequences

Sequence type	Number used	Length(Mb)	Total(Mb)
Phase 1	10344	1693.54
Phase 2	758	102.39
Phase 3	28118	3394.29	5533.95

Framework assemblies

Number of contigs generated	545
Length of sequence assembled (x10³)	2866450

Contigs categorized by type of source sequence

Type of source sequence	Number used	Length (bp)
Draft only	121	2.32845x10⁷
Finished only	372	2.40456x10⁹
Draft and Finished	52	4.38605x10⁸

Contigs categorized by size

Range in kb	Number	Length (kb)	Percent of total
<30	13	164	0.01
30-100	37	2093	0.07
100-250	158	27514	0.96
250-500	51	17634	0.62
500-1000	53	38530	1.34
1000-5000	117	292393	10.2
>5000	116	2487866	86.8

Genes, Exons and Introns

		genes
Group name		EST	Predicted	mRNA
Genes		3295	11972	17708
One-exon genes		6	721	215
Exons per gene	avg	4	5	12
Exon length	avg	440	158	226
	min	6	6	6
	max	6451	5969	90020
Intron length	avg	5605	10512	5478
	min	13	2	4
	max	400350	302125	1022077
mRNA length	avg	2127	820	2741
gene length	avg	13940	43918	55147

Clones, markers, genes, variation annotated on the sequence (by chromosome)

maps based on the sequence assembly

Haplotype	Chr	BES	BtUniG	Clone	Comp	Contig	CpG	FES	GScan	Genes	Haplotype	HsUniG	MmUniG	Pheno	RNA	RnUniG	SAGE tag	STS	SsUniG	Variation	dbSNP_HAP	gbDNA
DR51	6	485	148	10	45	1	981	1127	218	193	3	566	215	-	228	127	-	387	16	12878	-	1135
DR52	6	521	174	10	46	1	1113	1267	237	213	3	646	242	-	247	141	-	430	15	14924	-	1988
Reference	1	28713	1249	1199	2214	147	29565	52385	4708	3232	54	16674	3901	164	3446	2002	28113	10626	82	296964	-	6720
Reference	2	30550	787	587	1979	33	23944	45358	4070	2653	12	14831	2699	104	2754	1478	20074	7655	63	247229	-	7257
Reference	3	24915	694	390	1696	17	17612	34703	2943	1906	3	12016	2390	95	2044	1256	17226	6776	45	197058	-	4136
Reference	4	24842	453	442	1628	27	15769	29762	2515	1631	10	9210	1616	58	1678	761	11186	7474	38	195474	-	3275
Reference	5	23014	538	294	1759	12	16915	31408	2782	1772	1	10147	1918	85	1901	1078	13655	5922	37	209941	-	4462
Reference	6	21859	667	931	1799	19	17676	29754	3026	1935	11	10278	1804	104	2055	1036	12495	6223	46	204842	-	4368
Reference	7	19346	513	353	1529	20	20118	29217	2861	1891	8	10178	1723	73	1904	976	13760	7030	32	181681	-	3887
Reference	8	18392	423	311	1177	19	14072	26706	2360	1470	3	8067	1373	52	1554	678	10450	4646	30	155653	-	3255
Reference	9	15919	444	387	988	55	15293	25394	2246	1468	12	7816	1492	60	1552	773	11223	4005	35	152878	-	2505
Reference	10	16888	442	489	1124	29	15994	27841	2505	1463	4	8599	1496	64	1593	786	11599	4674	28	160476	-	2896
Reference	11	15764	675	410	1109	11	15394	27070	2732	2027	2	8830	2209	114	2134	1222	15136	5936	52	169137	-	5239
Reference	12	15971	691	308	1154	14	16458	25261	2308	1673	4	9150	1957	79	1793	1092	15939	5644	50	135889	-	3394
Reference	13	12281	185	314	863	8	9079	15121	1404	820	3	4685	770	35	836	415	5304	2878	11	109105	-	1394
Reference	14	10831	379	218	654	1	10327	17220	1607	1212	1	5970	1231	48	1077	698	9551	4460	28	94934	-	5854
Reference	15	10998	356	251	665	13	10689	19337	1746	1206	3	6520	1298	43	1296	693	10065	3256	27	100241	-	2701
Reference	16	10954	495	273	724	14	16215	21683	1940	1327	2	6496	1417	65	1398	763	11851	3198	19	108116	-	3005
Reference	17	8966	770	154	655	15	19109	21675	2212	1693	3	8201	2096	95	1829	1167	16580	3933	47	89320	-	3544
Reference	18	9856	151	103	593	6	7451	13465	1227	670	1	3851	711	23	716	343	4433	2284	10	90053	-	1967
Reference	19	4865	638	89	861	6	20544	15184	2063	1761	3	6241	1602	72	1867	892	14486	2620	51	67471	-	3030
Reference	20	7145	320	376	633	7	9343	15370	1325	956	1	4371	878	30	985	499	7623	2842	14	184223	-	1262
Reference	21	4148	97	87	485	5	4972	6519	623	440	1	2309	313	20	457	170	2170	1741	6	64161	2773	1383
Reference	22	3983	280	342	539	11	9035	10786	1074	844	1	3749	631	41	810	408	7047	2025	14	90079	-	3238
Reference	X	8764	474	920	1561	43	14159	22161	2180	1438	15	4961	1503	-	1529	774	8325	5370	33	139033	-	3348
Reference	Y	3300	7	35	201	7	1265	162	316	221	2	302	67	-	219	16	255	485	1	16121	-	327
Reference	Unlocalized	64	-	-	8	8	104	154	12	6	8	20	8	-	6	-	-	6	-	214	-	36
Reference	TOTAL	352328	11728	9263	26598	547	351102	563696	52785	35715	168	183472	37103	1524	37433	19976	278546	111709	799	3460293	2773	82483
ALL	TOTAL	353334	12050	9283	26689	549	353196	566090	53240	36121	220	184684	37560	1524	37908	20244	278546	112526	830	3488095	2773	85606

Maps in non-sequence coordinates (genetic, cytogenetic, physical)

genetic maps

Chr	Genethon	Marshfield	deCODE
1	461	654	458
2	452	626	398
3	353	514	359
4	280	430	293
5	312	456	322
6	311	452	289
7	272	400	241
8	249	380	237
9	189	290	193
10	281	407	250
11	273	387	257
12	249	370	231
13	164	242	172
14	162	247	158
15	145	201	121
16	180	253	149
17	186	286	177
18	136	207	152
19	121	205	114
20	144	207	141
21	61	107	64
22	67	97	65
X	216	253	172
TOTAL	5264	7671	5013

maps in cytogenetic coordinates

Chr	FISH_Clones	Genes	Mitelman	Morbid
1	1468	3396	1011	207
2	657	2740	274	144
3	465	2012	592	128
4	484	1703	185	87
5	404	1864	644	100
6	1014	2187	665	112
7	384	2001	676	94
8	348	1535	359	76
9	501	1563	526	88
10	553	1525	223	80
11	519	2280	677	141
12	357	1752	458	96
13	365	862	375	44
14	248	1347	347	64
15	292	1297	178	66
16	307	1459	236	91
17	193	1843	375	119
18	127	712	148	37
19	116	1907	195	102
20	456	982	157	37
21	113	490	168	23
22	377	878	323	47
X	1031	1693	105	221
Y	24	263	6	7
TOTAL	10803	38291	8903	2211

physical maps (radiation hybrid, ordered clones)

Chr	GM99_G3	GM99_GB4	NCBI_RH	Stanford_G3	TNG	WI_RH	WI_YAC
1	661	5351	2433	551	4343	1363	913
2	586	3191	1615	515	2898	1177	948
3	527	3063	1573	501	3071	1057	815
4	494	2088	1398	709	4096	759	726
5	283	2299	1189	350	2095	805	657
6	422	3156	1594	407	1969	831	632
7	461	2249	1094	419	1646	799	568
8	276	1797	979	276	1733	631	566
9	266	1795	852	271	1364	632	402
10	371	2053	1194	358	1634	700	517
11	385	2606	1315	411	1592	819	501
12	323	2412	1286	326	1494	758	495
13	156	1032	591	162	987	364	312
14	276	1616	905	260	1040	512	345
15	214	1563	790	191	1018	504	301
16	192	1284	683	210	1085	441	254
17	265	1847	929	230	892	456	239
18	163	789	487	177	857	334	311
19	200	1672	722	182	457	374	80
20	167	1317	720	159	544	354	270
21	88	442	338	156	970	143	112
22	109	789	337	112	265	269	141
X	176	1347	703	179	473	492	367
Y	-	-	-	73	110	-	-
TOTAL	7061	45758	23727	7185	36633	14574	10472

Last updated 30 April 2003

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