Genomes Genome Browser Tables Help  
Human Feb. 2009 (GRCh37/hg19) Browser Sequences
 
Enter a position, or click on a sequence name to view the entire sequence in the genome browser.

position

Sequence name   Length (bp) including gaps  
chr1 249,250,621  
chr1_gl000191_random 106,433  
chr1_gl000192_random 547,496  
chr2 243,199,373  
chr3 198,022,430  
chr4 191,154,276  
chr4_ctg9_hap1 590,426  
chr4_gl000193_random 189,789  
chr4_gl000194_random 191,469  
chr5 180,915,260  
chr6 171,115,067  
chr6_apd_hap1 4,622,290  
chr6_cox_hap2 4,795,371  
chr6_dbb_hap3 4,610,396  
chr6_mann_hap4 4,683,263  
chr6_mcf_hap5 4,833,398  
chr6_qbl_hap6 4,611,984  
chr6_ssto_hap7 4,928,567  
chr7 159,138,663  
chr7_gl000195_random 182,896  
chr8 146,364,022  
chr8_gl000196_random 38,914  
chr8_gl000197_random 37,175  
chr9 141,213,431  
chr9_gl000198_random 90,085  
chr9_gl000199_random 169,874  
chr9_gl000200_random 187,035  
chr9_gl000201_random 36,148  
chr10 135,534,747  
chr11 135,006,516  
chr11_gl000202_random 40,103  
chr12 133,851,895  
chr13 115,169,878  
chr14 107,349,540  
chr15 102,531,392  
chr16 90,354,753  
chr17 81,195,210  
chr17_ctg5_hap1 1,680,828  
chr17_gl000203_random 37,498  
chr17_gl000204_random 81,310  
chr17_gl000205_random 174,588  
chr17_gl000206_random 41,001  
chr18 78,077,248  
chr18_gl000207_random 4,262  
chr19 59,128,983  
chr19_gl000208_random 92,689  
chr19_gl000209_random 159,169  
chr20 63,025,520  
chr21 48,129,895  
chr21_gl000210_random 27,682  
chr22 51,304,566  
chrX 155,270,560  
chrY 59,373,566  
chrUn_gl000211 166,566  
chrUn_gl000212 186,858  
chrUn_gl000213 164,239  
chrUn_gl000214 137,718  
chrUn_gl000215 172,545  
chrUn_gl000216 172,294  
chrUn_gl000217 172,149  
chrUn_gl000218 161,147  
chrUn_gl000219 179,198  
chrUn_gl000220 161,802  
chrUn_gl000221 155,397  
chrUn_gl000222 186,861  
chrUn_gl000223 180,455  
chrUn_gl000224 179,693  
chrUn_gl000225 211,173  
chrUn_gl000226 15,008  
chrUn_gl000227 128,374  
chrUn_gl000228 129,120  
chrUn_gl000229 19,913  
chrUn_gl000230 43,691  
chrUn_gl000231 27,386  
chrUn_gl000232 40,652  
chrUn_gl000233 45,941  
chrUn_gl000234 40,531  
chrUn_gl000235 34,474  
chrUn_gl000236 41,934  
chrUn_gl000237 45,867  
chrUn_gl000238 39,939  
chrUn_gl000239 33,824  
chrUn_gl000240 41,933  
chrUn_gl000241 42,152  
chrUn_gl000242 43,523  
chrUn_gl000243 43,341  
chrUn_gl000244 39,929  
chrUn_gl000245 36,651  
chrUn_gl000246 38,154  
chrUn_gl000247 36,422  
chrUn_gl000248 39,786  
chrUn_gl000249 38,502  
chrM 16,571  
Total: 93 3,137,161,264

About the Human Feb. 2009 (GRCh37/hg19) assembly (sequences)
 
human
Homo sapiens
(Graphic courtesy of CBSE)

The February 2009 human reference sequence (GRCh37) was produced by the Genome Reference Consortium. For more information about this assembly, see GRCh37 in the NCBI Assembly database.

Sample position queries

A genome position can be specified by the accession number of a sequenced genomic clone, an mRNA or EST or STS marker, a chromosomal coordinate range, or keywords from the GenBank description of an mRNA. The following list shows examples of valid position queries for the human genome. See the User's Guide for more information.

Request:
   Genome Browser Response:

chr7 Displays all of chromosome 7
chrUn_gl000212 Displays all of the unplaced contig gl000212
20p13 Displays region for band p13 on chr 20
chr3:1-1000000 Displays first million bases of chr 3, counting from p-arm telomere
chr3:1000000+2000 Displays a region of chr3 that spans 2000 bases, starting with position 1000000

RH18061;RH80175
15q11;15q13
rs1042522;rs1800370
Displays region between genome landmarks, such as the STS markers RH18061 and RH80175, or chromosome bands 15q11 to 15q13, or SNPs rs1042522 and rs1800370. This syntax may also be used for other range queries, such as between uniquely determined ESTs, mRNAs, refSeqs, etc.

D16S3046 Displays region around STS marker D16S3046 from the Genethon/Marshfield maps. Includes 100,000 bases on each side as well.
AA205474 Displays region of EST with GenBank accession AA205474 in BRCA1 cancer gene on chr 17
AC008101 Displays region of clone with GenBank accession AC008101
AF083811 Displays region of mRNA with GenBank accession number AF083811
PRNP Displays region of genome with HUGO Gene Nomenclature Committee identifier PRNP
NM_017414
Displays the region of genome with RefSeq identifier NM_017414
NP_059110
Displays the region of genome with protein accession number NP_059110

pseudogene mRNA Lists transcribed pseudogenes, but not cDNAs
homeobox caudal Lists mRNAs for caudal homeobox genes
zinc finger Lists many zinc finger mRNAs
kruppel zinc finger Lists only kruppel-like zinc fingers
huntington Lists candidate genes associated with Huntington's disease
zahler Lists mRNAs deposited by scientist named Zahler
Evans,J.E. Lists mRNAs deposited by co-author J.E. Evans

Use this last format for author queries. Although GenBank requires the search format Evans JE, internally it uses the format Evans,J.E..


Assembly Details

The GRCh37 build reference sequence is considered to be "finished", a technical term indicating that the sequence is highly accurate (with fewer than one error per 10,000 bases) and highly contiguous (with the only remaining gaps corresponding to regions whose sequence cannot be reliably resolved with current technology). Future work on the reference sequence will focus on improving accuracy and reducing gaps in the sequence. Statistics for the GRCh37 build assembly can be found on the NCBI Build 37.1 Statistics web page.

Note on chrM
Since the release of the UCSC hg19 assembly, the Homo sapiens mitochondrion sequence (represented as "chrM" in the Genome Browser) has been replaced in GenBank with the record NC_012920. We have not replaced the original sequence, NC_001807, in the hg19 Genome Browser. We plan to use the Revised Cambridge Reference Sequence (rCRS) in the next human assembly release.

Chromosome naming scheme
In addition to the "regular" chromosomes, the hg19 browser contains nine haplotype chromosomes and 59 unplaced contigs. If an unplaced contig is localized to a chromosome, the contig name is appended to the regular chromosome name, as in chr1_gl000191_random. If the chromosome is unknown, the contig is represented with the name "chrUn" followed by the contig identifier, as in chrUn_gl000211. Note that the chrUn contigs are no longer placed in a single, artificial chromosome as they have been in previous UCSC assemblies. See the sequences page for a complete list of hg19 chromosome names.

The nine haplotype chromosomes are:

nameaccessionUCSC chr name
HSCHR6_MHC_APD_CTG1GL000250.1chr6_apd_hap1
HSCHR6_MHC_COX_CTG1GL000251.1chr6_cox_hap2
HSCHR6_MHC_DBB_CTG1GL000252.1chr6_dbb_hap3
HSCHR6_MHC_MANN_CTG1GL000253.1chr6_mann_hap4
HSCHR6_MHC_MCF_CTG1GL000254.1chr6_mcf_hap5
HSCHR6_MHC_QBL_CTG1GL000255.1chr6_qbl_hap6
HSCHR6_MHC_SSTO_CTG1GL000256.1chr6_ssto_hap7
HSCHR4_1_CTG9GL000257.1chr4_ctg9_hap1
HSCHR17_1_CTG5GL000258.1chr17_ctg5_hap1

See the Wellcome Trust Sanger Institute MHC Haplotype Project web site for additional information on the chr6 alternate haplotype assemblies.

The Y chromosome in this assembly contains two pseudoautosomal regions (PARs) that were taken from the corresponding regions in the X chromosome and are exact duplicates:

chrY:10001-2649520 and chrY:59034050-59363566
chrX:60001-2699520 and chrX:154931044-155260560

For further information on GRCh37 build see the NCBI GRCh37 release notes.

Bulk downloads of the data are available from the UCSC downloads server via ftp or http. We recommend that you use rsync or ftp for downloading large or multiple files.

The hg19 annotation tracks were generated by UCSC and collaborators worldwide. See the Credits page for a detailed list of the organizations and individuals who contributed to this release.


Genbank Pipeline Details

For the purposes of the Genbank alignment pipeline, this assembly is considered to be: finished.