Atlas of Genetics and Cytogenetics in Oncology and Haematology

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Chromosome 3

Chromosome 3 : G-banding, diagram and R-banding - Claude Léonard, Jean-Loup Huret

Leukaemia     

t(1;3)(p36;q21)
t(1;3)(p36;p21)
t(1;3)(p32;p21)
t(2;3)(p23;q21)
t(2;3)(p15-23;q26-27)
t(2;3)(p12;q27)
3q21q26 rearrangements in treatment related leukemia
3q27 rearrangements in non Hodgkin lymphoma
t(3;Var)(q27;Var) in non Hodgkin lymphoma
3q rearrangements in myeloid malignancies
ins(3;3)(q26;q21q26)
inv(3)(q21q26)
t(3;3)(q21;q26)
inv(3)(p12q26)
t(3;3)(p24;q26)
t(3;3)(q25;q27) (NHL; BCL6 and MBNL1; rare)
t(3;3)(q27;q29) (NHL; BCL6 and TFRC; rare)
t(3;11)(q25;q23)
+3 or trisomy 3 in non Hodgkin's lymphoma (NHL)
inv(3)(q23q26)
t(3;4)(p21;q34)
t(3;4)(q27;p13)
t(3;5)(q25;q34)
t(3;5)(q21;q31)/ANLL (AML; ---; not rare)
t(3;5)(q26;q34)
t(3;6)(q25;q26)
t(3;6)(q27;p21) (NHL; BCL6 and SFRS3; rare)
t(3;6)(q27;p21) (NHL; BCL6 and PIM1; rare)
t(3;6)(q27;q15) (NHL; BCL6 and SNHG5; rare)
t(3;7)(q26;q21)
t(3;7)(q27;p12-13)
t(3;8)(q21;q24) (AML;---; rare)
t(3;8)(q26;q24)
t(3;8)(q27;q24) (NHL; BCL6 and MYC; rare)
t(3;9)(p13;p13) (ALL; FOXP1 and PAX5; rare):
t(3;9)(q26;p23)
t(3;11)(p21;q23)
t(3;11)(p24;p15) (AML; NUP98 and TOP2B; rare)
t(3;11)(q21;q23) (AML; EEFSEC and MLL; rare)
t(3;11)(q26;p15)
t(3;11)(q27;q23) (NHL; BCL6 and OBF1, rare)
t(3;11)(q28;q23)
t(3;12)(q26;p13)
t(3;12)(q26;q21)
t(3;12)(q27;p13) (NHL; BCL6 and GAPD; rare)
t(3;12)(q27;q12) (NHL; BCL6 and LRMP; rare)
t(3;12)(q27;q23) (NHL; BCL6 and NACA; rare)
t(3;13)(q27;q14)
t(3;14)(p14;q32)
t(3;14)(q21;q32)
t(3;14)(q27;q32) (NHL; BCL6 and HSP90AA1; rare)
t(3;14)(q27;q32)
t(3;16)(q21;q22) (AML; -- and CBFB?; rare)
t(3;16)(q27;p11)
t(3;16)(q27;p13)
t(3;17)(p25;q21) (AML; -- and RARA; rare)
t(3;17)(q26;q22)
t(3;18)(q26;q11)
t(3;18)(q27;p11) (NHL; BCL6 and EIF4A2; rare)
t(3;19)(q27;q13) (NHL; BCL6 and NAPA; rare)
t(3;21)(q26;q22)
t(3;21)(q26;q22) in treatment related leukemia
t(3;22)(q27;q11)

Solid Tumors     

t(1;3)(q22;q12)
t(1;3)(p36;q25)
t(3;12)(q27;q15)
t(3;12)(q28;q15)
t(3;12)(q27;q15)
t(3;17)(q21;p13)

Cancer prone diseases     

Fanconi anaemia
Familial nervous system tumour syndromes
Holoprosencephaly-Diencephalic Hamartoblastoma (HDH).
Turcot syndrome
Von Hippel-Lindau

All Genes by Location (Kb)
Chromosome 3 by location

Losses / Amplicons     

BONE/SOFT TISSUE

External links     

  • Chromosome 3 - HUGO Chromosomes
  • Chromosome 3 - GoldenPath - Santa Cruz
  • Chromosome 3 - Ensembl Project
  • Chromosome 3 - Map View - NCBI
  • Chromosome 3 - GDB (Genome Data Base)
  • Chromosome 3 - OMIM Gene map
  • Chromosome 3 - Genomic Variants
  • Chromosome 3 - HAPMAP Project
  • Chromosome 3 - Genome Channel - ORNL
  • Chromosome 3 - LaunchPad HGMIS
  • Chromosome 3 - Human Protein Atlas
  • Chromosome 3 - SpliceNest
  • Human BAC Resource (NCBI)
  • FISH-mapped BACs (CCAP)
  • Genetic Maps (CHLC)
  • YACs mapped by FISH (Bari)
  • PCP (Partial Chromosome Paints) (Bari)
  • Positional Cloning Project (Berlin Dahlem)
  • Mouse homology - OMIM - NCBI
  • Cancer GeneWeb
  • GeneCards (Weizmann)
  • Human Proteomics Initiative (Expasy)

    • Genes

    Annotated genes
    SymbolLocation (Kb)Location (pter-qter)
    BCL6 188921.859 3q27
    CBLB 106859.800 3q13.11
    CDC25A 48173.672 3p21
    CTNNB1 41215.946 3p21
    DIRC2 123996.597 3q21.1
    EIF4A2 187984.055 3q28
    EVI1 170283.981 3q24-q28
    FANCD2 10043.113 3p26
    FHIT 59710.078 3p14.2
    FOXP1 71087.427 3p14.1
    GHRL 10302.434 3p26-p25
    GMPS 157071.019 3q24
    HSPBAP1 123941.536 3q21.1
    HYAL1 50312.325 3p21.3-p21.2
    HYAL2 50330.244 3p21.3
    LPP 189413.415 3q28
    MLF1 159771.678 3q25.1
    MLH1 37009.983 3p21.3
    MME 156280.399 3q25.1-q25.2
    MST1R 49899.440 3p21.3
    MUC4 196959.311 3q29
    NCKIPSD 48686.284 3p21
    PTPRG 61522.285 3p21-p14
    RAF1 12600.108 3p25
    RAP2B 154362.719 3q25.2
    RARRES1 159897.593 3q25.32-q25.33
    RASSF1 50342.221 3p21.3
    RBM5 50101.372 3p21.3
    RHOA 49371.585 3p21.3
    RNF7 142939.741 3q22-q24
    SEMA3F 50167.852 3p21.3
    TCTA 49424.643 3p21
    TFG 101910.850 3q12.2
    TFRC 197260.747 3q29
    TNFSF10 173706.159 3q26
    VHL 10158.319 3p26-p25
    XPC 14161.651 3p25
    Other genes
    possibly implicated
    in cancer
    SymbolLocation (Kb)Location (pter-qter)
    A4GNT 139325.757 3p14.3
    AADAC 153014.551 3q21.3-q25.2
    AADACL1 173831.130 3q26.31
    ABCC5 185120.420 3q27
    ABI3BP 101950.871 3q12
    ABTB1 128874.471 3q21
    ACPP 133518.949 3q21-q23
    ACVR2B 38470.794 3p22
    ACY1 51992.603 3p21.1
    ADAMTS9 64476.373 3p14.3-p14.2
    ADIPOQ 188043.157 3q27
    ADPRH 120781.213 3q13.31-q13.33
    AGTR1 149898.348 3q21-q25
    ALAS1 52207.156 3p21.1
    ALCAM 106568.403 3q13.1
    ALDH1L1 127305.098 3q21.2
    ANAPC13 135679.240 3q22.1
    AP2M1 185375.328 3q28
    APEH 49686.439 3p21.31
    APOD 196776.867 3q26.2-qter
    APPL1 57236.805 3p21.1-p14.3
    ARF4 57532.130 3p21.2-p21.1
    ARHGEF3 56736.486 3p21-p13
    ARL6 98966.285 3q11.2
    ARL6IP5 69216.780 3p14
    ARMC8 139388.838 3q22.3
    ARMET 51397.743 3p21.1
    ASTE1 132215.411 3q22.1
    ATP2B2 10342.745 3p25.3
    ATR 143650.767 3q22-q24
    AXUD1 39158.351 3p22
    BAP1 52410.067 3p21.31-p21.2
    BCHE 166973.386 3q26.1-q26.2
    BHLHB2 4996.208 3p26
    BRPF1 9748.434 3p26-p25
    C3orf10 10132.333 3p25.3
    C3orf28 123585.713 3q21.1
    C3orf32 8636.321 3p26.1
    C3orf35 37415.972 3p22.2
    C3orf51 55667.346 -
    CACNA2D2 50375.236 3p21.3
    CAMK1 9774.033 3p25.3
    CAMP 48239.866 3p21.3
    CASR 123385.220 3q13
    CAV3 8750.496 3p25
    CCBP2 42825.968 3p21.3
    CCDC54 108578.878 3q13.12
    CCK 42274.322 3p22-p21.3
    CCNL1 158348.282 3q25.32
    CCR1 46218.204 3p21
    CCR2 46370.364 3p21.31
    CCR3 46258.692 3p21.3
    CCR4 32968.070 3p24
    CCR5 46386.637 3p21.31
    CCR9 45903.023 3p21.3
    CD200 113534.606 3q12-q13
    CD47 109244.631 3q13.1-q13.2
    CD80 120725.832 3q13.3-q21
    CD86 123256.911 3q21
    CD96 112743.616 3q13.13-q13.2
    CDCP1 45126.737 3p21.31
    CEP63 135687.265 3q22.1-q22.2
    CHDH 53826.679 3p21.1
    CHL1 213.650 3p26.1
    CHRD 185580.555 3q27
    CHST2 144321.358 3q24
    CISH 50618.930 3p21.3
    CLDN1 191506.197 3q28-q29
    CLDN18 139211.696 3q22.3
    CLDND1 99717.008 3q12.1
    CLEC3B 45042.763 3p22-p21.3
    CNBP 130371.122 3q21
    CNTN3 74394.412 3p26
    COL7A1 48576.510 3p21.1
    COX17 120871.062 3q13.33
    CP 150373.224 3q23-q25
    CPB1 150028.278 3q24
    CSTA 123526.701 3q21
    CTDSPL 37878.673 3p21.3
    CX3CR1 39279.990 3p21|3p21.3
    CXCR6 45959.977 3p21
    CYB561D2 50363.301 3p21.3
    DAG1 49482.569 3p21
    DCBLD2 99997.505 3q12.1|3
    DCLK3 36728.917 3p22.2
    DCUN1D1 184143.254 3q26.3
    DGKG 187347.684 3q27.2-q27.3
    DHX30 47819.655 3p21.31
    DHX36 155476.152 -
    DLEC1 38055.700 3p22-p21.3
    DLG1 198253.828 3q29
    DNAH12 57406.977 3p21.1
    DNAJB11 187771.161 3q27.3
    DNAJB8 129663.972 3q21.3
    DNAJC13 133619.243 3q22.1
    DNAJC19 182184.200 3q26.33
    DNASE1L3 58153.394 3p21.1-p14.3
    DOCK3 50687.676 3p21.31
    DPH3 16277.014 3p24.3
    DPPA4 110527.678 3q13.13
    DUSP7 52059.799 3p21
    EAF2 123036.724 3q13.33
    ECT2 173954.992 3q26.1-q26.2
    EDEM1 5204.433 3p26.2
    EEFSEC 129355.003 3q21.3
    EIF4G1 185515.665 3q27-qter
    EIF5A2 172088.899 3q26.2
    EPHA3 89239.364 3p11.2
    EPHA6 98641.180 3q11.2
    EPHB1 135996.950 3q21-q23
    EPHB3 185762.281 3q21-qter
    ERC2 55517.376 3p14.3
    ETV5 187246.805 3q28
    FAIM 139810.232 3q22.3
    FAM107A 58524.887 3p21.1
    FAT1P1 155476.152 20p12.2
    FBXO40 122794.860 3q13.33
    FBXO45 197780.122 3q29
    FEZF2 62330.387 3p14.2
    FGD5 14835.810 3p24.3
    FGF12 193342.424 3q28
    FILIP1L 101049.463 3q12.1
    FOXL2 140145.757 3q23
    FSTL1 121595.817 3q13.33
    FXR1 182113.146 3q28
    FYCO1 45934.399 3p21.31
    GATA2 129680.962 3q21.3
    GCET2 113322.378 3q13.2
    GHSR 173645.646 3q26.31
    GNAI2 50248.651 3p21
    GNAT1 50204.047 3p21
    GNB4 180596.570 3q26.32-q26.33
    GNL3 52694.976 3p21.1
    GOLGA4 37259.742 3p22-p21.3
    GPR87 152494.587 3q24
    GPX1 49369.615 3p21.3
    GSK3B 121028.238 3q13.3
    GTF2E1 121944.248 3q21-q24
    HCLS1 122832.937 3q13
    HDAC11 13496.824 3p25.1
    HES1 195336.628 3q28-q29
    HESX1 57207.265 3p21.2-p21.1
    HIGD1A 42799.404 3p22.1
    HLTF 150230.594 3q25.1-q26.1
    HRASLS 194441.612 3q29
    HRG 187866.492 3q27
    HYAL3 50305.266 3p21.3
    ID2B 62084.205 3p14.2
    IGF2BP2 186844.222 3q27.2
    IGSF11 120102.171 3q13.32
    IHPK1 49736.732 3p21.31
    IHPK2 48705.887 3p21.31
    IL12A 161189.323 3q25.33-q26
    IL17RB 53855.617 3p21.1
    IL17RC 9933.782 3p25.3|3p25.3-p24.1
    IL17RD 57099.050 3p14.3
    IL1RAP 191714.585 3q28
    IL5RA 3108.494 3p26-p24
    IMPDH2 49036.772 3p21.2
    IQSEC1 12914.374 3p25.1
    IRAK2 10181.563 3p25.3
    ITGA9 37468.817 3p21.3
    ITGB5 125964.486 3q21.2
    ITIH1 52786.648 3p21.2-p21.1
    ITIH3 52803.824 3p21.2-p21.1
    ITPR1 4510.034 3p26-p25
    KNG1 187917.814 3q27
    KPNA1 123623.438 3q21
    KPNA4 161700.658 3q25.33
    LAMB2 49133.551 3p21
    LAMP3 184322.697 3q26.3-q27
    LEPREL1 191157.316 3q28
    LIMD1 45611.327 3p21.3
    LMCD1 8518.511 3p26-p24
    LNP1 101602.727 3q12.2
    LOC51190 42607.296 -
    LOH3CR2A 8588.890 3p25.3
    LRE1 189413.415 22q11.1-q11.2
    LRE2 189413.415 1q
    LRIG1 66511.912 3p14
    LRRC15 195557.274 3q29
    LRRFIP2 37069.503 3p22.2
    LTF 46452.501 3q21-q23
    MAGEF1 185910.850 3q13
    MAGI1 65319.986 3p14.1
    MAP3K13 186563.664 3q27
    MAP4 47867.190 3p21
    MAPKAPK3 50629.605 3p21.3
    MBD4 130632.483 3q21-q22
    MBNL1 153468.519 3q25
    MCF2L2 184378.525 3q27.1
    MCM2 128799.943 3q21
    MDS1 170349.580 3q26
    MFI2 198230.221 3q28-q29
    MINA 99143.351 3q11.2
    MITF 69895.652 3p14.2-p14.1
    MLVI4 134239.943 8q24
    MRAS 139549.315 3q22.3
    MST1 49696.393 3p21
    MUC13 126106.979 -
    MYD88 38155.009 3p22
    MYL3 46874.361 3p21.3-p21.2
    MYLK 124813.835 3q21
    NAT6 50308.838 3p21.3
    NCK1 138063.763 3q21
    NEK10 27178.761 3p24.1
    NEK11 132228.417 3q22.1
    NEK4 52719.841 3p21.1
    NIT2 101536.258 3q12.2
    NKTR 42617.151 3p23-p21
    NLGN1 174598.938 3q26.31
    NME6 48310.595 3p21
    NPCDR1 59931.617 3p21.1
    NR1D2 23961.810 3p24.2
    NR1I2 120984.247 3q12-q13.3
    NR2C2 14964.240 3p25
    NUP210 13332.737 3p25.1
    OGG1 9765.705 3p26.2
    OXSR1 38182.030 3p22-p21.3
    OXTR 8767.097 3p25
    P2RY1 154035.426 3q25.2
    PAK2 197951.312 3q29
    PARP3 51951.401 3p21.31-p21.1
    PARP9 123729.463 3q13-q21
    PBRM1 52554.424 3p21
    PCAF 20056.528 3p24
    PCBP4 51966.515 3p21
    PDCD10 168884.390 3q26.1
    PDCD6IP 33814.561 3p22.3
    PDZRN3 73514.342 3p13
    PFKFB4 48530.129 3p22-p21
    PH-4 49002.345 3p21.31
    PHC3 171288.062 3q26.2
    PHF7 52419.567 3p21.1
    PIK3CA 180349.005 3q26.3
    PIK3CB 139856.923 3q22.3
    PIK3R4 131880.469 3q22.1
    PLCD1 38023.993 3p22-p21.3
    PLCL2 16949.586 3p24.3
    PLCXD2 112876.213 3q13.2
    PLD1 172801.345 3q26
    PLS1 143825.034 3q23
    PLSCR1 147715.658 3q23
    PLXNA1 128190.192 3q21.3
    PLXNB1 48420.267 3p21.31
    POLQ 122632.963 3q13.33
    POPDC2 120843.598 3q13.33
    POU1F1 87391.473 3p11
    PPARG 12368.001 3p25
    PPM1L 161956.690 3q26.1
    PPP1R2 196722.514 3q29
    PPP2R3A 137224.272 3q22.1
    PPP4R2 73128.809 3p13
    PRKAR2A 48763.097 3p21.3-p21.2
    PRKCD 53170.263 3p21.31
    PRKCI 171422.914 3q26.3
    PROS1 95074.647 3q11.2
    PSMD2 185499.716 3q27.1
    PTHR1 46894.240 3p22-p21.1
    PTPN23 47397.495 3p21.3
    PTX3 158637.301 3q25
    PXK 58293.657 3p14.3
    RAB43 130289.108 3q21.3
    RAB5A 19963.763 3p24-p22
    RAB6B 135025.772 3q22.1
    RAB7A 129927.669 3q21.3
    RABL3 121888.220 3q13.33
    RAD18 8896.561 3p25-p24
    RARB 25444.758 3p24
    RASA2 142688.616 3q22-q23
    RBM6 49952.596 3p21.3
    RBP1 140718.974 3q23
    RETNLB 109957.176 3q13.1
    RFC4 187990.378 3q27
    RHO 130730.172 3q21-q24
    RNF123 49701.994 3p24.3
    RNF13 151013.165 3q25.1
    ROBO1 78729.080 3p12
    ROPN1 125170.571 3q21.1
    RPL15 23933.643 3p24.2
    RPL29 52002.685 3p21.3-p21.2
    RPN1 129821.503 3q21.3
    RPSA 39423.208 3p22.2
    RTP3 46514.489 3p21.3
    RUVBL1 129282.493 3q21
    RYBP 72506.441 3p13
    RYK 135358.668 3q22
    SATB1 18364.439 3p23
    SCN5A 38564.557 3p21
    SEMA3B 50280.044 3p21.3
    SERPINI2 168642.417 3q26.1-q26.2
    SETMAR 4320.016 3p26.2
    SFMBT1 52913.668 3p21.1
    SGEF 155321.884 3q25.2
    SHISA5 48484.201 3p21.31
    SIAH2 151941.601 3q25
    SKIL 171558.210 3q26
    SLC38A3 50217.696 3p21.3
    SMARCC1 47602.391 3p23-p21
    SMC4 161600.124 3q26.1
    SNRK 43303.008 3p22.1
    SOX2 182912.416 3q26.3-q27
    SRPRB 135007.367 3q22.1
    SS18L2 42607.302 3p21
    SSR3 157741.239 3q25.31
    SST 188869.390 3q28
    ST13P 155476.152 20p11.22
    ST6GAL1 188131.210 3q27-q28
    STAG1 137538.689 3q22.3
    TADA3L 9799.813 3p25.3
    TBC1D23 101462.546 3q12.1-q12.2
    TBL1XR1 178221.868 3q26.32
    TDGF1 46594.217 3p21.31
    TERC 170965.091 3q26
    TF 134947.925 3q22.1
    TFDP2 143154.018 3q23
    TGFBR2 30622.998 3p22
    TGM4 44891.102 3p22-p21.33
    THPO 185572.467 3q27
    THRB 24134.710 3p24.2
    THUMPD3 9379.736 3p25.3
    TIMP4 12169.573 3p25
    TLOC1 171167.274 3q26.2
    TLR9 52230.138 3p21.3
    TM4SF1 150569.495 3q21-q25
    TMEM158 45240.961 3p21.3
    TMF1 69151.670 3p21-p12
    TNIK 172264.366 3q26.2-q26.31
    TNK2 197074.633 3q29
    TOMM70A 101564.999 3q12.2
    TOP2B 25614.479 3p24
    TOPBP1 134802.177 3q22.1
    TP63 190831.910 3q28
    TPRG1 190372.457 3q28
    TRAIP 49841.032 3p21.31
    TREX1 48482.233 3p21.31
    TRH 131176.253 3q13.3-q21
    TRIM59 161635.986 3q26.1
    TRPC1 143925.956 3q22-q24
    TSP50 46728.610 3p14-p12
    TUSC2 50337.345 3p21.3
    TUSC4 50359.923 3p21.3
    TWF2 52237.667 3p21.1
    TXNRD3 127809.027 3q21.3
    UBA3 69186.572 3p24.3-p13
    UBA5 133861.836 3q22.1
    UBA7 49817.643 3p21
    UBE2E1 23822.443 3p24.2
    UBE2E2 23219.812 3p24.2
    UBP1 33404.835 3p22.3
    ULK4 41263.094 3p22.1
    UMPS 125931.903 3q13
    UPK1B 120375.115 3q13.3-q21
    UQCRC1 48611.436 3p21.3
    USP4 49289.998 3p21.3
    VGLL3 87069.815 3p12.1
    VIPR1 42519.121 3p22
    VPRBP 51408.338 3p21.2
    WDR51A 52084.310 3p21.1
    WNT5A 55474.784 3p21-p14
    WNT7A 13835.083 3p25
    XCR1 46037.296 3p21.3-p21.1|3p21.3
    ZBTB20 115540.213 3q13.2
    ZIC1 148609.871 3q24
    ZMAT3 180224.221 3q26.3-q27
    ZMYND10 50353.541 3p21.3
    ZNF148 126427.203 3q21
    ZNF197 44641.515 3p21

    GeneCards   GDB - List of genes

    This page should be referenced as such :
    Dessen P, Knuutila S, Huret JL Chromosome 3. Atlas Genet Cytogenet Oncol Haematol. 2002.
    URL : http://AtlasGeneticsOncology.org/Indexbychrom/idxa_3.html
    © Atlas of Genetics and Cytogenetics in Oncology and Haematology
    indexed on : Fri May 16 20:24:03 2008
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