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NEW - Histone gene nomenclature review | ![]() |
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| Giving unique and meaningful names to every human gene | ||||||||
NEW - December 2006: The HGNC is in the process of reviewing the nomenclature of all human histone genes. We, therefore, welcome and encourage input from the research community in order to establish a histone nomenclature system that will ideally be used by researchers in future publications, and incorporated into our database, the Histone Sequence Database, and all the major genome databases.
To comment on the problems of the currrent nomenclature system and/or to propose a new nomenclature system, please consult the table below and email hgnc@genenames.org; please also direct your colleagues to this page. Unless specified your email will be added to our discussion page to facilitate discussion amongst the research community.
For a review of the current replication-dependent histone gene nomenclature see Marzluff WF, Gongidi P, Woods KR, Jin J, Maltais LJ. The human and mouse replication-dependent histone genes. Genomics. 2002 Nov;80(5):487- 98; PMID:12408966 (PDF).
Symbols in bold are those commonly used in the literature
Rows highlighted in blue are mouse-specific histone genes (with MGNC approved nomenclature) with no known human equivalent
Replication-independent histone genes |
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HGNC approved gene symbol |
HGNC approved gene name |
HGNC previous symbols |
HGNC aliases* |
HGNC record accession |
HGNC record RefSeq |
GeneID |
Location |
Coordinates |
Mouse ortholog** |
Notes |
H1 histone family, member 0 |
H1FV | H10 | 22q13.1 |
+ve 36531005- 36533643 |
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H1 histone family, member N, testis-specific |
HANP1, H1T2 | 12q13.11 |
+ve 47009030- 47010329 |
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H1 histone family, member O, oocyte-specific |
3q21.3 |
+ve 130744747- 30752894 |
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H1 histone family, member X |
MGC15959, MGC8350, H1X | 3q21.3 |
-ve 130516794- 130517435 |
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H2A histone family, member B1 |
Xq28 |
+ve 153766511- 153767027 |
n/a |
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H2A histone family, member B2 |
Xq28 |
+ve 154263622- 154264138 |
n/a |
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H2A histone family, member B3 |
H2AFB | Xq28 |
-ve 154342274- 154342790 |
n/a |
Mouse ortholog MGI:3644875? | |||||
H2A histone family, member J |
FLJ10903, MGC921 | 12p12.3 |
+ve 14818672- 14819612 |
HIST4# cluster? | ||||||
H2A histone family, member V |
H2AV | MGC10170, MGC10831, MGC1947 | 7p13 |
-ve 44840457- 44849479 |
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H2A histone family, member V, pseudogene |
HsT19970 | 15q26.1 |
-ve 91077818- 91078511 |
n/a |
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H2A histone family, member X |
H2AX | 11q23.3 |
-ve 11846979- 118471387 |
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H2A histone family, member Y |
macroH2A1.2 | 5q31.1 |
-ve 134697224- 134763476 |
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H2A histone family, member Y2 |
macroH2A2 | 10q22.1 |
+ve 71482558- 71542021 |
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| H2afy3 | H2A histone family, member Y3 | n/a | ||||||||
H2A histone family, member Z |
H2AZ | 4q24 |
-ve 101088266- 101090454 |
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H2A histone family, member Z, pseudogene |
21q22.3 |
-ve 44291043- 44291359 |
n/a |
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H2A histone family, member Z, pseudogene 2 |
8q13.3 |
-ve 71178179- 71178968 |
n/a |
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H2B histone family, member M |
Xq22.2 |
+ve 103181172- 103183676 |
n/a |
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H2B histone family, member O |
H2B/o | 1q21.2 |
-ve 148081679- 148081727 |
n/a |
HIST2# cluster? | |||||
H2B histone family, member S |
21q22.3 |
+ve 43809548- 43809928 |
n/a |
H2bfs is an alias for mouse Hist1h2bc | ||||||
H2B histone family, member W, testis-specific |
Xq22.2 |
-ve 103153940- 103154888 |
n/a |
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H3 histone, family 3A |
H3F3 | H3.3A | 1q42.12 |
+ve 224317002- 224326323 |
HIST3# cluster? | |||||
H3 histone, family 3A, pseudogene 1 |
HsT18159 | 15q15.1 |
-ve 38030864- 38031144 |
n/a |
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H3 histone, family 3A, pseudogene 2 |
H3F3CP | 14q11.2 |
+ve 22833625- 22834849 |
n/a |
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| H3f3a-ps1 | H3 histone, family 3A, pseudogene 1 | n/a | ||||||||
| H3f3a-ps2 | H3 histone, family 3A, pseudogene 2 | n/a | ||||||||
H3 histone, family 3B (H3.3B) |
H3.3B | 17q25.1 |
-ve 71284908- 71288179 |
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H4 histone, family 3 |
3q13.13 |
-ve 110609902- 110612777 |
n/a |
Rename as H3F3P? | ||||||
Replication-dependent histone genes |
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HGNC approved gene symbol |
HGNC approved gene name |
HGNC previous symbols |
HGNC aliases |
HGNC record accession |
HGNC record RefSeq |
GeneID |
Location |
Coordinates |
MGI ID |
Notes |
histone cluster 1, H1a |
H1F1 | H1.1 | 6p22.1 |
-ve 26124840- 26126459 |
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histone cluster 1, H1b |
H1F5 | H1.5 | 6p22.1 |
-ve 27942606- 27943286 |
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histone cluster 1, H1c |
H1F2 | H1.2 | 6p21.3 |
-ve 26163994- 26164635 |
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histone cluster 1, H1d |
H1F3 | H1.3 | 6p21.3 |
-ve 26342475- 26343140 |
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histone cluster 1, H1e |
H1F4 | H1.4 | 6p22.1 |
+ve 26264598- 26265257 |
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histone cluster 1, H1, pseudogene 1 |
dJ34B20.16, FLJ39701, H1F6P | 6p22.1 |
+ve 26303773- 26303978 |
n/a |
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histone cluster 1, H1, pseudogene 2 |
H3FEP | pH3/e | 6p22.1 |
+ve 26124180- 26125048 |
n/a |
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histone cluster 1, H1t |
H1FT | H1t | 6p22.1 |
-ve 26215677- 26216297 |
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histone cluster 1, H2aa |
bA317E16.2, H2AFR | 6p22.2 |
-ve 25834339- 25834734 |
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histone cluster 1, H2ab |
H2AFM | H2A/m | 6p22.1 |
-ve 26141383- 2614177 |
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histone cluster 1, H2ac |
H2AFL | 6p22.1 |
+ve 26232352- 26232948 |
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histone cluster 1, H2ad |
H2AFG | H2A/g, H2A.3 | 6p22.1 |
-ve 26307058- 26307450 |
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histone cluster 1, H2ae |
H2AFA | H2A/a, H2A.1 | 6p22.1 |
+ve 26325182- 26325574 |
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| Hist1h2af | histone cluster 1, H2af | n/a | ||||||||
histone cluster 1, H2ag |
H2AFP | pH2A/f, H2A/p, H2A.1b | 6p22.1 |
+ve 27208800- 27211049 |
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histone cluster 1, H2ah |
H2AFALii, dJ86C11.1, H2A/S | 6p22.1 |
+ve 27222887- 27223273 |
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histone cluster 1, H2ai |
H2AFC | H2A/c | 6p22.1 |
+ve 27883956- 27884458 |
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histone cluster 1, H2aj |
H2AFE | H2A/E | 6p22.1 |
-ve 27890111- 27890497 |
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histone cluster 1, H2ak |
H2AFD | H2A/d | 6p22.1 |
-ve 27913704- 27914096 |
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histone cluster 1, H2al |
H2AFI | H2A/i, dJ193B12.9 | 6p22.1 |
+ve 27941112- 27941504 |
n/a |
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histone cluster 1, H2am |
H2AFN | H2A/n, H2A.1 | 6p22.1 |
-ve 27968514- 27968906 |
n/a |
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| Hist1h2an | histone cluster 1, H2an | n/a | ||||||||
| Hist1h2ao | histone cluster 1, H2ao | n/a | ||||||||
histone cluster 1, H2a, pseudogene 1 |
bA317E16.5, H2AFSP | 6p22.2 |
+ve 25840672- 25841018 |
n/a |
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histone cluster 1, H2a, pseudogene 2 |
H2AFTP | dJ139G21.2, H2A/T | 6p22.2 |
-ve 25990233- 25990602 |
n/a |
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histone cluster 1, H2a, pseudogene 3 |
dJ34B20.8, H2AFUP | 6p22.1 |
+ve 26341329- 26341462 |
n/a |
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histone cluster 1, H2a, pseudogene 4 |
H2AFK, H2AFKP | pH2A/k, dJ34B20.2 | 6p22.1 |
-ve 26380400- 26380747 |
n/a |
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histone cluster 1, H2a, pseudogene 5 |
H2AFFP | pH2A/f | 6p22.1 |
+ve 26152107- 26152757 |
n/a |
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histone cluster 1, H2ba |
bA317E16.3, STBP, TSH2B, H2BFU | 6p22.2 |
+ve 25835116- 25835499 |
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histone cluster 1, H2bb |
H2BFF | H2B/f | 6p22.1 |
-ve 26151484- 26151864 |
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histone cluster 1, H2bc |
H2BFL | H2B/l, H2B.1 | 6p22.1 |
-ve 26231731- 26232108 |
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histone cluster 1, H2bd |
H2BFB | H2B/b | 6p22.1 |
+ve 26266353- 26279556 |
n/a |
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histone cluster 1, H2be |
H2BFH | H2B/h, H2B.h | 6p22.1 |
+ve 26292002- 26292387 |
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histone cluster 1, H2bf |
H2BFG | H2B/g | 6p22.1 |
+ve 26307766- 26308146 |
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histone cluster 1, H2bg |
H2BFA | H2B/a, H2B.1A | 6p21.3 |
-ve 26324470- 26324850 |
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histone cluster 1, H2bh |
H2BFJ | H2B/j | 6p21.3 |
+ve 26359858- 26360238 |
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histone cluster 1, H2bi |
H2BFK | H2B/k | 6p22.1 |
+ve 26381183- 26381563 |
n/a |
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histone cluster 1, H2bj |
H2BFR | H2B/r | 6p22.1 |
-ve 27208128- 27208508 |
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histone cluster 1, H2bk |
H2BFT | H2BFAiii | 6p22.1 |
-ve 27221799- 27222935 |
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histone cluster 1, H2bl |
H2BFC | H2B/c, dJ97D16.4 | 6p22.1 |
-ve 27882906- 27884042 |
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histone cluster 1, H2bm |
H2BFE | H2B/e, dJ160A22.3 | 6p22.1 |
+ve 27890421- 27891557 |
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histone cluster 1, H2bn |
H2BFD | H2B/d | 6p22.1 |
+ve 27914039- 27915175 |
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histone cluster 1, H2bo |
H2BFN | H2B/n, H2B.2 | 6p22.1 |
+ve 27968840- 27969976 |
n/a |
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| Hist1h2bp | histone cluster 1, H2bp | n/a | ||||||||
histone cluster 1, H2b, pseudogene 1 |
bA317E16.4, H2BFVP | 6p22.2 |
-ve 25839990- 25840369 |
n/a |
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histone cluster 1, H2b, pseudogene 2 |
H2BFIP | pH2B/i | 6p22.1 |
-ve 27939819- 27940158 |
n/a |
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histone cluster 1, H3a |
H3FA | H3/A | 6p22.1 |
+ve 26128287- 26129513 |
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histone cluster 1, H3b |
H3FL | H3/l | 6p22.1 |
-ve 26139857- 26140267 |
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histone cluster 1, H3c |
H3FC | H3/c, H3.1 | 6p22.1 |
+ve 26153618- 26154028 |
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histone cluster 1, H3d |
H3FB | H3/b | 6p22.1 |
-ve 26305047- 26305457 |
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histone cluster 1, H3e |
H3FD | H3/d, H3.1 | 6p22.1 |
+ve 26333362- 26333772 |
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histone cluster 1, H3f |
H3FI | H3/i | 6p22.1 |
-ve 26358402- 26358812 |
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histone cluster 1, H3g |
H3FH | H3/h | 6p22.1 |
-ve 26379181- 26379591 |
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histone cluster 1, H3h |
H3FK | H3/k, H3F1K | 6p22.1 |
+ve 27885821- 27887057 |
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histone cluster 1, H3i |
H3FF | H3/f, H3.f | 6p22.1 |
-ve 27947662- 27948072 |
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histone cluster 1, H3j |
H3FJ | H3/j | 6p22.1 |
-ve 27966139- 27966549 |
n/a |
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histone cluster 1, H3, pseudogene 1 |
dJ45P21.6, H3F3AP1 | 6p22.1 |
-ve 26430083- 26430499 |
n/a |
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histone cluster 1, H4a |
H4FA | 6p22.1 |
+ve 26129575- 26130504 |
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histone cluster 1, H4b |
H4FI | H4/I | 6p22.1 |
-ve 26135148- 26135456 |
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histone cluster 1, H4c |
H4FG | H4/g, dJ221C16.1 | 6p22.1 |
+ve 26212155- 26212466 |
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histone cluster 1, H4d |
H4FB | H4/b | 6p22.1 |
-ve 26296972- 26297283 |
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histone cluster 1, H4e |
H4FJ | H4/j | 6p22.1 |
+ve 26312852- 26313163 |
n/a |
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histone cluster 1, H4f |
H4FC | H4/c, H4 | 6p22.1 |
+ve 26348633- 26348944 |
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histone cluster 1, H4g |
H4FL | H4/l | 6p22.1 |
-ve 26354888- 26355184 |
n/a |
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histone cluster 1, H4h |
H4FH | H4/h | 6p22.1 |
-ve 26393320- 26393716 |
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histone cluster 1, H4i |
H4FM | H4/m | 6p22.1 |
+ve 27214346- 27215639 |
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histone cluster 1, H4j |
H4FE | H4/e | 6p22.1 |
+ve 27899765- 27899976 |
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histone cluster 1, H4k |
H4FD | H4/d | 6p22.1 |
-ve 27906372- 27907897 |
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histone cluster 1, H4l |
H4FK | H4.k, H4/k | 6p22.1 |
-ve 27948956- 27949267 |
n/a |
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| Hist1h4m | histone cluster 1, H4m | n/a | ||||||||
histone cluster 1, H4, pseudogene 1 |
H4FFP | pH4/f, dJ97D16.3 | 6p22.1 |
+ve 27882638- 27883282 |
n/a |
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| Hist2h2aa1 | histone cluster 2, H2aa1 | n/a | ||||||||
| Hist2h2aa2 | histone cluster 2, H2aa2 | n/a | ||||||||
histone cluster 2, H2aa3 |
H2AFO, HIST2H2AA | H2A.2, H2A/q | 1q21.2 |
-ve 148080108- 148081280 |
n/a |
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histone cluster 2, H2aa4 |
H2A/r | 1q21.2 |
+ve 148089252- 148089815 |
n/a |
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histone cluster 2, H2ab |
1q21.2 |
-ve 148125698- 148126090 |
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histone cluster 2, H2ac |
H2A, H2AFQ | H2A/q | 1q21.2 |
+ve 148124776- 148125894 |
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histone cluster 2, H2ba |
1 |
n/a |
Pseudogene? Blats to 3 locations |
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histone cluster 2, H2bb |
1 |
Pseudogene? Blats to 3 locations |
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histone cluster 2, H2bc |
H2B/t | 1q21.2 |
-ve 148088210- 148089343 |
n/a |
Pseudogene? | |||||
histone cluster 2, H2bd |
H2B/s | 1q21.2 |
+ve 148080973- 148081985 |
n/a |
Pseudogene? | |||||
histone cluster 2, H2be |
H2B, H2BFQ | H2B/q, H2B.1 | 1q21.2 |
-ve 148124058- 148125194 |
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histone cluster 2, H2bf |
1q21.2 |
-ve 148050122- 148050502 |
n/a |
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histone cluster 2, H3a |
H3/n, H3/o | 1q21.2 |
+ve 148090318- 148091640 |
n/a |
Pseudogene? | |||||
histone cluster 2, H3b |
HIST2H3PS1 | AF531306 -mouse sequence? |
Only two HIST2H3 loci? Withdraw HIST2H3B? |
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