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hoxlist.txt

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        UniProt - Swiss-Prot Protein Knowledgebase
        SIB Swiss Institute of Bioinformatics; Geneva, Switzerland
        European Bioinformatics Institute (EBI); Hinxton, United Kingdom
        Protein Information Resource (PIR); Washington DC, USA
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Description: Vertebrate homeotic Hox proteins: nomenclature and list of
             entries
Name:        hoxlist.txt
Release:     2014_09 of 01-Oct-2014

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Background information

The homeotic Hox proteins  are sequence-specific transcription  factor which
are part  of  a  developmental regulatory  system  that  provides cells with
specific positional identities  on  the  anterior-posterior  (A-P) axis [1].
The hox proteins contain an  'homeobox'  domain.  In  Drosophila  and  other
insects  there  are  eight  different Hox genes that are encoded in two gene
complexes: ANT-C and BX-C; while in vertebrates there are 39 genes organized
in four complexes.

In 1992/93 [2,3] a  new  nomenclature system was proposed for Hox genes. The
four gene  complexes are assigned  the  letters  A  to D.  Based on sequence
similarities the genes  can be sorted into 13 'paralog' groups. The order of
the paralogs along the chromosomes are conserved in the four complexes.  The
gene name is obtained  by  concatenating the gene complex letter designation
with  the  group  number;  examples: HOXA1,  HOXB4,  HOXC8, HOXD13, etc.  In
several cases a representative of  a paralog group is absent from a complex,
in  such cases  that  gene number is omitted. For  example: HOXA8, HOXC1 and
HOXD2 do not exist.

We have fully implemented this nomenclature system in Swiss-Prot.

[ 1] McGinnis W., Krumlauf R.
     Cell 68:283-302(1992).
     [Pubmed: 1346368]
[ 2] Scott M.P.
     Cell 71:551-553(1992).
     [Pubmed: 1358459]
[ 3] Scott M.P.
     Nucleic Acids Res. 21:1687-1688(1993).
     [Pubmed: 8098522]


=======================================
Table of the nomenclature for HOX genes
=======================================

New     Previous Previous  Other         Other      Other previous names used
gene    Human    Mouse     Mouse         Human      in various species
name    name     name      names         names
______  ______   ________  ____________  _________  __________________________
HOXA1   HOX1F    HOX-1.6   era-1
HOXA2   HOX1K    HOX-1.11                           NvHbox-2.8
HOXA3   HOX1E    HOX-1.5   mo-10
HOXA4   HOX1D    HOX-1.4   mh-3                     R2; Chox-1.4; Zf-26
HOXA5   HOX1C    HOX-1.3   m2                       s12-B
HOXA6   HOX1B    HOX-1.2   m5-4
HOXA7   HOX1A    HOX-1.1   m6-12; m6                R5; Quox-1; XlHbox-3;
                                                    Xhox-36
HOXA9   HOX1G    HOX-1.7
HOXA10  HOX1H    HOX-1.8                 PL
HOXA11  HOX1I    HOX-1.9                            Ghox-1i; Chox-1.9
HOXA13  HOX1J    HOX-1.10
HOXB1   HOX2I    HOX-2.9                            Ghox-lab; AHox1
HOXB2   HOX2H    HOX-2.8                 K8         s6
HOXB3   HOX2G    HOX-2.7   mh-23                    Chox-2.7; XlHox-2.7
HOXB4   HOX2F    HOX-2.6                            Chox-Z; Xhox-1A
HOXB5   HOX2A    HOX-2.1   Mu-1; H24.1   Hu-1; c10  Ohox-2.1; Ghox-2.1;
                                                    XlHbox-4; Xhox-1B; Zf-21
HOXB6   HOX2B    HOX-2.2   mh-22A        Hu-2       Ghox-2.2; XlHox-2.2; Zf-22
HOXB7   HOX2C    HOX-2.3   mh-22B; mub1  c1         R1b; XlHbox-2; MM3
HOXB8   HOX2D    HOX-2.4                            R1a; Chox-2.4
HOXB9   HOX2E    HOX-2.5                            XlHbox-6
HOXB10  -        -                                  Does not exist in mammals.
HOXB13  -        -
HOXC1   -        -                                  Does not exist in mammals.
HOXC3   -        -                                  Does not exist in mammals.
HOXC4   HOX3E    HOX-3.5                 cp19       R3
HOXC5   HOX3D    HOX-3.4   Hox-6.2       cp11       XlHbox-5; NvHbox-3.4;
                                                    Zf-25
HOXC6   HOX3C    HOX-3.3   Hox-6.1       c8; cp25   NvHox-1; FH-2; XlHbox-1;
                                                    AC1; Zf-61
HOXC8   HOX3A    HOX-3.1   m31                      R4
HOXC9   HOX3B    HOX-3.2
HOXC10  HOX3I    HOX-3.6
HOXC11  HOX3H    HOX-3.7
HOXC12  HOX3F    HOX-3.8
HOXC13  HOX3G    HOX-3.9
HOXD1   HOX4G    HOX-4.9
HOXD3   HOX4A    HOX-4.1   mh-19                    Hox-7.1; R6
HOXD4   HOX4B    HOX-4.2   Hox-5.1       c13        Hox-8.1; Chox-A; Zf-13
HOXD5   -        -                                  Does not exist in mammals.
HOXD8   HOX4E    HOX-4.3   Hox-5.4                  Chox-M
HOXD9   HOX4C    HOX-4.4   Hox-5.2                  Chox-4.4
HOXD10  HOX4D    HOX-4.5   Hox-5.3       Hox4E      Chox-4.5; Chox-4d
HOXD11  HOX4F    HOX-4.6   Hox-5.5                  Chox-4.6; Ghox-4.6;
                                                    Chox-4e; NvHox-2
HOXD12  HOX4H    HOX-4.7   Hox-5.6                  Chox-4.7; Chox-4f
HOXD13  HOX4I    HOX-4.8   Hox-5.7                  Chox-4.8; Chox-4g



================================
Swiss-Prot entries for HOX genes
================================

Hox sequences in vertebrates
----------------------------

A1     P49639; HXA1_HUMAN    P09022; HXA1_MOUSE    O08656; HXA1_RAT
       Q98SI1; HXA1A_DANRE   Q1KL10; HXA1A_TAKRU   Q9IA19; HXA1_HETFR
       Q08821; HXA1_XENLA
A2     Q0VCS4; HXA2_BOVIN    B0VXK3; HXA2_CALJA    O43364; HXA2_HUMAN
       P31245; HXA2_MOUSE    A9L937; HXA2_PAPAN    P31246; HXA2_RAT
       Q08727; HXA2_CHICK    O42365; HXA2B_DANRE   Q1KL11; HXA2A_TAKRU
       Q1KKZ2; HXA2B_TAKRU   Q9IA20; HXA2_HETFR    P31261; HXA2_NOTVI
A3     Q08DG7; HXA3_BOVIN    O43365; HXA3_HUMAN    P02831; HXA3_MOUSE
       O93353; HXA3_CHICK    Q8AWZ2; HXA3A_DANRE   Q1KL12; HXA3A_TAKRU
       Q9IA21; HXA3_HETFR
A4     Q00056; HXA4_HUMAN    P06798; HXA4_MOUSE    P09635; HXA4_RAT
       Q28598; HXA4_SHEEP    P17277; HXA4_CHICK    Q9PWL5; HXA4A_DANRE
       Q1KL13; HXA4A_TAKRU   Q9IA22; HXA4_HETFR    Q9PWD2; HXA4_MORSA
       P81192; HXA4_LINSA
A5     Q2HJ67; HXA5_BOVIN    P20719; HXA5_HUMAN    A2D5K9; HXA5_LAGLA
       A2D5Y4; HXA5_LEMCA    P09021; HXA5_MOUSE    P52949; HXA5_RAT
       Q28599; HXA5_SHEEP    Q6B3N0; HXA5_CHICK    Q9YGT6; HXA5A_DANRE
       Q1KL14; HXA5A_TAKRU   Q9IA23; HXA5_HETFR    Q9PWD3; HXA5_MORSA
       P09637; HXA5_SALSA    P50208; HXA5_AMBME
A6     P31267; HXA6_HUMAN    P09092; HXA6_MOUSE    Q5YLH5; HXA6_CHICK
       Q9IA24; HXA6_HETFR
A7     P31268; HXA7_HUMAN    P02830; HXA7_MOUSE    A1YGK7; HXA7_PANPA
       A2T7F3; HXA7_PANTR    P09634; HXA7_RAT      Q28600; HXA7_SHEEP
       Q90VZ9; HXA7_CHICK    P24061; HXA7_COTJA    Q9IA25; HXA7_HETFR
       Q9PWD4; HXA7_MORSA    P09636; HXA7_SALSA    P09071; HXA7_XENLA
A9     P51783; HXA9_CAVPO    P31269; HXA9_HUMAN    P09631; HXA9_MOUSE
       Q98924; HXA9_CHICK    Q9PWL6; HXA9A_DANRE   Q9YGT5; HXA9B_DANRE
       O42506; HXA9A_TAKRU   Q1KKZ3; HXA9B_TAKRU   Q9IA26; HXA9_HETFR
       Q9PWD5; HXA9_MORSA    P50209; HXA9_AMBME
A10    P31260; HXA10_HUMAN   P31310; HXA10_MOUSE   Q8AWY2; HXAAB_DANRE
       Q1KL16; HXAAA_TAKRU   Q1KKZ4; HXAAB_TAKRU   Q9IA27; HXA10_HETFR
       Q9PWD6; HXA10_MORSA
A11    P31270; HXA11_HUMAN   P31311; HXA11_MOUSE   P31258; HXA11_CHICK
       Q9DDU0; HXABA_DANRE   Q9DDU1; HXABB_DANRE   Q9DDU2; HXABB_DEVAE
       Q1KL17; HXABA_TAKRU   Q1KKZ5; HXABB_TAKRU
A13    P31271; HXA13_HUMAN   Q62424; HXA13_MOUSE   Q90X25; HXA13_CHICK
       Q6W990; HXADA_DANRE   P79724; HXADB_DANRE   Q1KL22; HXADA_TAKRU
       Q1KKZ6; HXADB_TAKRU   P50210; HXA13_AMBME
B1     A2D4R4; HXB1_ATEGE    P14653; HXB1_HUMAN    A2D649; HXB1_MACMU
       A2T6H5; HXB1_MACNE    P17919; HXB1_MOUSE    A1YG01; HXB1_PANPA
       A2T6Z0; HXB1_PANTR    A2T7J2; HXB1_PONPY    P31259; HXB1_CHICK
       O42366; HXB1A_DANRE   Q90423; HXB1B_DANRE   Q90346; HXB1_CYPCA
       Q1KKX5; HXB1A_TAKRU   Q1KKW8; HXB1B_TAKRU   P31357; HXB1_AMBME
B2     P14652; HXB2_HUMAN    P0C1T1; HXB2_MOUSE    O42367; HXB2A_DANRE
       Q6IEI0; HXB2A_TAKRU   P09638; HXB2_SALSA
B3     P14651; HXB3_HUMAN    P09026; HXB3_MOUSE    P23682; HXB3_CHICK
       O42368; HXB3A_DANRE   Q1KKX7; HXB3A_TAKRU   P31247; HXB3_XENLA
B4     Q08DG5; HXB4_BOVIN    P17483; HXB4_HUMAN    P10284; HXB4_MOUSE
       P14840; HXB4_CHICK    P22574; HXB4A_DANRE   O13074; HXB4A_TAKRU
       P09070; HXB4_XENLA
B5     P09067; HXB5_HUMAN    P09079; HXB5_MOUSE    P14157; HXB5_SHEEP
       P14838; HXB5_CHICK    P09014; HXB5A_DANRE   P09013; HXB5B_DANRE
       Q1KKX9; HXB5A_TAKRU   Q1KKX0; HXB5B_TAKRU   P09019; HXB5_XENLA
B6     P17509; HXB6_HUMAN    P09023; HXB6_MOUSE    P14839; HXB6_CHICK
       P15861; HXB6A_DANRE   Q9YGT4; HXB6B_DANRE   Q1KKY0; HXB6A_TAKRU
       Q1KKX1; HXB6B_TAKRU   P31256; HXB6_XENLA
B7     Q9TT89; HXB7_BOVIN    A1YFA5; HXB7_GORGO    P09629; HXB7_HUMAN
       P09024; HXB7_MOUSE    P18864; HXB7_RAT      Q8AWY9; HXB7A_DANRE
       Q91771; HXB7A_XENLA   P04476; HXB7B_XENLA
B8     P17481; HXB8_HUMAN    P09632; HXB8_MOUSE    P09078; HXB8_PIG
       P18863; HXB8_RAT      P23681; HXB8_CHICK    Q8AWZ0; HXB8A_DANRE
       Q8JH55; HXB8B_DANRE   Q1KKY1; HXB8A_TAKRU
B9     P17482; HXB9_HUMAN    P20615; HXB9_MOUSE    Q9PWM2; HXB9A_DANRE
       Q1KKY2; HXB9A_TAKRU   P31272; HXB9_XENLA
B10    Q9PWL7; HXBAA_DANRE
B13    Q92826; HXB13_HUMAN   P70321; HXB13_MOUSE   Q1ECY2; HXBDA_DANRE
       Q1KKY3; HXBDA_TAKRU
C1     Q98SH9; HXC1A_DANRE
C3     P28174; HXC3A_DANRE
C4     P09017; HXC4_HUMAN    Q08624; HXC4_MOUSE    P18865; HXC4_RAT
       Q9PWM3; HXC4A_DANRE   Q1KKU6; HXC4A_TAKRU   Q9PVS4; HXC4_ORYLA
C5     Q00444; HXC5_HUMAN    P32043; HXC5_MOUSE    P09074; HXC5A_DANRE
       Q1KKU7; HXC5A_TAKRU   P31262; HXC5_NOTVI    P09020; HXC5_XENLA
C6     P09630; HXC6_HUMAN    P10629; HXC6_MOUSE    P49925; HXC6_SHEEP
       P15862; HXC6A_DANRE   Q9PWM5; HXC6B_DANRE   O42504; HXC6A_TAKRU
       P14858; HXC6_NOTVI
       P02832; HXC6_XENLA
C8     P31273; HXC8_HUMAN    P09025; HXC8_MOUSE    P18866; HXC8_RAT
       Q9YH13; HXC8_CHICK    Q68EH7; HXC8A_DANRE   O42503; HXC8A_TAKRU
C9     P31274; HXC9_HUMAN    P09633; HXC9_MOUSE    Q28601; HXC9_SHEEP
       Q9YGS6; HXC9A_DANRE   O42502; HXC9A_TAKRU   Q9PVQ9; HXC9_ORYLA
C10    Q9NYD6; HXC10_HUMAN   A2D635; HXC10_MACMU   A2T6F8; HXC10_MACNE
       P31257; HXC10_MOUSE   A2T7H7; HXC10_PONPY   Q1KKV1; HXCAA_TAKRU
C11    O43248; HXC11_HUMAN   P31313; HXC11_MOUSE   Q58EL0; HXCBA_DANRE
       Q1KKV2; HXCBA_TAKRU
C12    P31275; HXC12_HUMAN   Q8K5B8; HXC12_MOUSE   Q9YGT0; HXCCB_DANRE
       Q1KKV3; HXCCA_TAKRU
C13    P31276; HXC13_HUMAN   P50207; HXC13_MOUSE   Q6JIY5; HXCDA_DANRE
       Q6JIY4; HXCDB_DANRE   Q1KKV4; HXCDA_TAKRU
D1     Q9GZZ0; HXD1_HUMAN    Q01822; HXD1_MOUSE    P13544; HXD1_CHICK
       Q08820; HXD1_XENLA
D3     P31249; HXD3_HUMAN    P09027; HXD3_MOUSE    P18867; HXD3_RAT
       P14158; HXD3_SHEEP    O42370; HXD3A_DANRE   A8DT10; HXD3_HAPBU
       Q1KKS7; HXD3A_TAKRU   Q3V5Z9; HXD3_ORYLA    A1L2P5; HXD3_XENLA
D4     A2D4P8; HXD4_ATEGE    A1YER7; HXD4_GORGO    P09016; HXD4_HUMAN
       A2D5I1; HXD4_LAGLA    P10628; HXD4_MOUSE    A1YFY3; HXD4_PANPA
       A2T6X6; HXD4_PANTR    A1YFD8; HXD4_SAGLB    P14159; HXD4_SHEEP
       P17278; HXD4_CHICK    O57374; HXD4A_DANRE   Q1KKS8; HXD4A_TAKRU
       Q1KKR6; HXD4B_TAKRU
D5     Q9IA11; HXD5_HETFR
D8     P13378; HXD8_HUMAN    P23463; HXD8_MOUSE    A2T748; HXD8_PANTR
       P23459; HXD8_CHICK    Q9IA12; HXD8_HETFR
D9     P28356; HXD9_HUMAN    P28357; HXD9_MOUSE    B5DFK3; HXD9_RAT
       P24340; HXD9_CHICK    Q9PWM6; HXD9A_DANRE   Q1KKS9; HXD9A_TAKRU
       Q1KKR7; HXD9B_TAKRU   Q9IA13; HXD9_HETFR    Q9PVR2; HXD9_ORYLA
D10    P28358; HXD10_HUMAN   A2D5V0; HXD10_LAGLA   P28359; HXD10_MOUSE
       A2T7D1; HXD10_PANTR   A1YFT7; HXD10_SAGLB   P24341; HXD10_CHICK
       Q90469; HXDAA_DANRE   Q1KKT0; HXDAA_TAKRU   Q9IA14; HXD10_HETFR
D11    P31277; HXD11_HUMAN   P23813; HXD11_MOUSE   P24342; HXD11_CHICK
       Q90470; HXDBA_DANRE   Q1KKT1; HXDBA_TAKRU   Q1KKR8; HXDBB_TAKRU
       Q9IA15; HXD11_HETFR   P31263; HXD11_NOTVI
D12    Q5EU40; HXD12_CARPS   P35452; HXD12_HUMAN   P23812; HXD12_MOUSE
       P24343; HXD12_CHICK   Q90471; HXDCA_DANRE   Q1KKT2; HXDCA_TAKRU
       Q9IA16; HXD12_HETFR
D13    Q5EU41; HXD13_CARPS   P35453; HXD13_HUMAN   P70217; HXD13_MOUSE
       P24344; HXD13_CHICK   Q90472; HXDDA_DANRE   Q9IA17; HXD13_HETFR


Hox sequences in Drosophila and other invertebrates
---------------------------------------------------

Abd-A  P29555; ABDA_DROME    P29552; ABDA_AEDAE    P15856; ABDA_APIME
       Q26430; ABDA_MANSE    P29556; ABDA_SCHGR    Q07961; ABDA_TRICA
       Q05007; ABDA_ARTSF
Abd-B  P09087; ABDB_DROME
AntP   P02833; ANTP_DROME    Q24645; ANTP_DROSU
Dfd    P07548; DFD_DROME
lab    P10105; LAB_DROME
pb     P31264; HMPB_DROME
Scr    P09077; SCR_DROME     P15859; SCR_APIME
Ubx    P05048; UBX_DROFU     Q23946; UBX_DROHY     P83949; UBX_DROME
       P20822; UBX_DROPS     P83950; UBX_DROSI     Q24703; UBX_DROVI
       Q8T940; UBX_JUNCO     Q25451; UBX_MUSDO
Hox3   P50901; HOX3_BRAFL

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