Table 3.

EKLF-dependent genes in the fetal liver

Intensity
Gene description
Common abbreviation
Accession no.
Ratio, —/— to +/+
EKLF—/—
EKLF+/+
Downregulated genes      
   Cytoskeleton       
      Erythrocyte protein band 4.9/dematin  Epb4.9* NM_013514  0.0507   372   7 233  
      Hect domain and RCC1 (CHC1)-like domain (RLD) 2  rjs  AF061529   0.079   95   741  
      Talin 1  Tln1  AK006088   0.0864   1 021   11 849  
      Cables  Cables,ik3-1  AF133208   0.137   571   4 207  
      P120-catenin  Catns NM_007615  0.224   142   587  
      Parvin, gamma  Parvg  AF312712   0.265   181   671  
      Alpha 1 spectrin  Spna-1 NM_011465  0.749   5 607   7 401  
   Transmembrane/blood group antigens/receptors       
      Solute carrier family 2, glucose transporter  Slc2a4; Glut4 NM_009204  0.0249   21   696  
      Solute carrier family 22; mitochondrial anion exchange  Slc22a4 OCTN1 NM_019687  0.0346   33   785  
      Lysophosphatidic acid-operated K+ channel; TRAAK  Kcnk4 NM_008431  0.0624   108   1 831  
      Rhodopsin, olfactory receptor  Rhod  AL133159   0.0862   281   3 661  
      Mus musculus olfactory receptor 65  Olfr65 NM_013617  0.0893   115   639  
      Calcium channel, voltage-dep, L type, alpha 1C subunit  Cacna1c NM_009781  0.097   110   668  
      Neurexophilin 4  Nxph4  AK004130   0.099   189   1 912  
      Duffy blood group  Dfy* NM_010045  0.108   1 432   13 104  
      ICAM 4, LW blood group  ICAM-4, Cd242*  AF296282   0.219   3 518   16 029  
      Roundabout homolog 3 (Drosophila)  Robo3 NM_011248  0.28   338.3   1 111  
      Erythroblast membrane-associated protein  Ermap* NM_013848  0.309   12 719   40 085  
      Transferrin receptor  Tfrc; CD71*  AK011596   0.31   7 367   23 487  
      Activin A receptor, type II-like 1  Acvrl1 NM_009612  0.326   1 301   3 480  
      Lectin, galactose binding, soluble 1  Lgals1; d-Gal1* NM_008495  0.335   11 570   33 382  
      Rhesus blood group CDE  Rhced* NM_011270  0.40   9 880   24 273  
      Glycophorin A  Gypa† NM_010369  0.572   14 932   25 518  
      CD59a antigen  Cd59a† NM_007652  0.626   4 744   7 127  
      CD47 antigen, Rh-related antigen  Cd47† NM_010581  0.647   9 620   14 890  
   Transcription factors and other nuclear proteins       
      Orphan nuclear receptor subfamily 0, group B, mem 1  Nr0b1; Dax NM_007430  0.0784   200   1 717  
      Retinoic acid receptor, gamma  Rarg, RARγ   M32071   0.123   160   1 240  
      Fanconi anemia, compl group D2  2410150O07Ri  AK019136   0.215   467   2 099  
      SMC2 structural maintenance of chromosomes 2-like 1  Smc2l1; CAP  AK017747   0.27   411   1 500  
      Homeo box B3  Hox-2.7  X66177   0.278   586   2 156  
      Zinc finger protein 297; Bing 1  Zfp297, Bing1 NM_020625  0.284   1 000   3 516  
      CBFA2T1, ETO, MTG8  Cbfa2t1h, Eto NM_009822  0.319   126   381  
      Zinc finger protein 1, Y-linked  Zfy1 NM_009570  0.329   180   451  
      Retinoic acid receptor, alpha  Rara, RARα   X56570   0.33   434   1 059  
      Zinc finger protein 162  Zfp162 NM_011750  0.335   159   446  
   Zinc finger and BTB domain containing 7  Zbtb7; Pokemon  AK018596   0.349   1 662   4 817  
      Kruppel-like factor 3  Klf3 NM_008453  0.38   389   910  
      Btebp1; Kruppel-like factor 9  Bteb1; Klf9 NM_010638  0.474   250   540  
      LIM domain only 2  Lmo2* NM_008505  0.483   4 807   9 776  
      GLI-Kruppel family member GLI3  Gli3 NM_008130  0.51   362   690  
      Hemogen  Hemgn  AF269248   0.539   7 947   15 065  
      TBP-associated factor 140  TAF140  AJ292189   0.539   818.5   1 359  
   Others       
      RIKEN cDNA 1190001M18 - EST  1190001M18Ri  AK004435   0.0594   128   1 522  
      RIKEN cDNA 4930518C09 gene  4930518C09Rik  AK015822   0.0762   119   836  
      Keratin complex 1, acidic, gene 15  Krt1-15 NM_008469  0.0457   149   1 858  
      Reelin  Reln  U72343   0.0458   100   3 690  
      Sparc/osteonectin, cwcv and kazal-like domains proteoglycan 1  Spock1 NM_009262  0.0503   56   632  
      Chaperonin subunit 6b (zeta)  Cct6b NM_009839  0.0578   66   505  
      IL-3; interleukin-3  IL3  S59969   0.081   268   3 479  
      RIKEN cDNA 1700011M02 gene  1700011M02Ri  AK005877   0.0831   300   2 917  
      Male wolffian duct clone: 6720484C15  6720484C15Rik  AK020173   0.0845   419   4 694  
      RIKEN cDNA 4933401L05 gene  4933401L05Rik  AK016606   0.0918   125   1 587  
      RIKEN cDNA 4933421O10 gene  4933421O10Ri  AK016866   0.0934   224   2 456  
      RIKEN cDNA 3110006O06 gene  3110006O06Ri  AK014014   0.0969   207   759  
      Tripartite motif-containing 59  Trim59 NM_025863  0.358   289   795  
      Synuclein, alpha  Snca* NM_009221  0.395   9 863   24 559  
   Nonheme enzymes       
      Fructosamine 3 kinase  FN3K  AJ404616   0.0746   346   4 573  
      ATPase, AAA domain containing 3A  Atad3a  AF343079   0.085   347   4 253  
      Mitochondrial gst 3  Mgst3* NM_025569  0.12   1 279   10 724  
      Pyruvate kinase  Pklr NM_013631  0.267   308.9   1 128  
      Protein tyrosine phosphatase 4a3  Ptp4a3, Acp5* NM_008975  0.268   3 153   11 465  
      Diacylglycerol O-acyltransferase 1  Dgat1 NM_010046  0.388   1 339   3 414  
      Pyruvate carboxylase  Pcx NM_008797  0.436   1 086   2 471  
      Ubiquitin-conjugating enzyme E2C  Ube2c  AK003722   0.461   12 446   26 672  
      Cathepsin B  Ctsb NM_007798  0.536   752.1   1 419  
   Globin and heme synthesis       
      Alpha hemoglobin-stabilizing protein  AHSP, EDRF*  AF060220   0.0426   3 666   78 235  
      β-Globin   β-major*  AF071431   0.199   13 941   72 270  
      Benzodiazepine receptor, peripheral  Bzrp* NM_009775  0.487   3 691   7 488  
      Interferon-stimulated protein  Isg20 NM_020583  0.501   1 432   2 890  
      Biliverdin reductase B  Blvrb  BC006617   0.524   15 936   29 989  
      Protoporphyrinogen oxidase  Ppox NM_008911  0.555   1 644   2 999  
      Hydroxymethylbilane synthase  Hmbs, PBGD  BC003861   0.693   30 672   42 426  
      Aminolevulinic acid synthase 2, erythroid  ALAS-E  M63244   0.711   38 138   53 271  
      Similar to Cpo protein  Cpox† NM_007757  0.752   684   
      Uroporphyrinogen decarboxylase  Urod† NM_009478  0.768   22 428   28 536  
      Ferrochelatase  Fech† NM_007998  1.195   20 752   17 629  
      Aminolevulinic acid synthase 1  ALAS-H†  M63245   1.394   846.2   625  
      Uroporphyrinogen III synthase  Uros† NM_009479  1.392   17 625   12 695  
Upregulated genes      
   Carbonic anhydrase 1  Car1 NM_009799  12.39   24 734   2 155  
   BCL2/adenovirus E1B 19-kDa interacting protein 1, NIP3  Bnip3 NM_009760  5.834   9 525   1 678  
   Neoplastic progression 3  Npn3; Srx; TX01  Z31362   4.732   3 036   686  
   RIKEN cDNA 9630039A02 gene  Cntnap2 NM_025771  4.651   1 571   388  
   Tnf receptor-associated factor 5  Traf5 NM_011633  4.464   778   367  
   Trafficking protein particle complex 2  Trappc2 NM_025432  4.039   880   344  
   RIKEN cDNA 3110040M04 gene  3110040M04Ri  AK014162   3.973   2 038   577  
   Glutathione transferase zeta 1  Tmed8; Gm1184  AK018286   3.909   2 717   690  
   Ubiquitin-conjugating enzyme E2E 1, UBC4/5 homolog  Ube2e1 NM_009455  3.842   4 706   2 774  
   Formin homology 2 domain containing 3  Fhod3  AK020839   3.558   1 508   498  
   RIKEN cDNA 1500010M24 gene  1500010M24Ri  AK005193   3.532   1 505   468.2  
   Interferon, alpha-inducible protein  G1p2 NM_015783  3.444   2 849   968.3  
   SH3 domain and nuclear localization signals, 1  Samsn1; Hacs1  AF222928   3.44   2 597   757  
   Phosphoglycerate kinase 1  Pgk1 NM_008828  3.367   14 878   5 269  
   ST3 beta-galactoside alpha-2,3-sialyltransferase 6  St3gal6 NM_018784  3.365   4 880   1 578  
   G kinase anchoring protein 1  Gkap1 NM_019832  3.29   803   460  
   Tuftelin 1  Tuft1 NM_011656  3.145   3 052   966  
   Kruppel-like factor 6  Klf6  AF072403   2.843   736   302  
   Retinoblastoma-like 2  Rbl2 NM_011250  2.793   812   346  
   Musashi homolog 2 (Drosophila)  msi2  AB056103   2.775   1 205   449  
   Annexin A6  Anxa6 NM_013472  2.622   575.2   317.8  
   Annexin A5  Anxa5 NM_009673  2.62   6 065   2 436  
   Phosphoglycerate mutase 1
 		Pgam1
 		 AF283667
 		 2.46
 		 23 283
 		 9 548
 
Intensity
Gene description
Common abbreviation
Accession no.
Ratio, —/— to +/+
EKLF—/—
EKLF+/+
Downregulated genes      
   Cytoskeleton       
      Erythrocyte protein band 4.9/dematin  Epb4.9* NM_013514  0.0507   372   7 233  
      Hect domain and RCC1 (CHC1)-like domain (RLD) 2  rjs  AF061529   0.079   95   741  
      Talin 1  Tln1  AK006088   0.0864   1 021   11 849  
      Cables  Cables,ik3-1  AF133208   0.137   571   4 207  
      P120-catenin  Catns NM_007615  0.224   142   587  
      Parvin, gamma  Parvg  AF312712   0.265   181   671  
      Alpha 1 spectrin  Spna-1 NM_011465  0.749   5 607   7 401  
   Transmembrane/blood group antigens/receptors       
      Solute carrier family 2, glucose transporter  Slc2a4; Glut4 NM_009204  0.0249   21   696  
      Solute carrier family 22; mitochondrial anion exchange  Slc22a4 OCTN1 NM_019687  0.0346   33   785  
      Lysophosphatidic acid-operated K+ channel; TRAAK  Kcnk4 NM_008431  0.0624   108   1 831  
      Rhodopsin, olfactory receptor  Rhod  AL133159   0.0862   281   3 661  
      Mus musculus olfactory receptor 65  Olfr65 NM_013617  0.0893   115   639  
      Calcium channel, voltage-dep, L type, alpha 1C subunit  Cacna1c NM_009781  0.097   110   668  
      Neurexophilin 4  Nxph4  AK004130   0.099   189   1 912  
      Duffy blood group  Dfy* NM_010045  0.108   1 432   13 104  
      ICAM 4, LW blood group  ICAM-4, Cd242*  AF296282   0.219   3 518   16 029  
      Roundabout homolog 3 (Drosophila)  Robo3 NM_011248  0.28   338.3   1 111  
      Erythroblast membrane-associated protein  Ermap* NM_013848  0.309   12 719   40 085  
      Transferrin receptor  Tfrc; CD71*  AK011596   0.31   7 367   23 487  
      Activin A receptor, type II-like 1  Acvrl1 NM_009612  0.326   1 301   3 480  
      Lectin, galactose binding, soluble 1  Lgals1; d-Gal1* NM_008495  0.335   11 570   33 382  
      Rhesus blood group CDE  Rhced* NM_011270  0.40   9 880   24 273  
      Glycophorin A  Gypa† NM_010369  0.572   14 932   25 518  
      CD59a antigen  Cd59a† NM_007652  0.626   4 744   7 127  
      CD47 antigen, Rh-related antigen  Cd47† NM_010581  0.647   9 620   14 890  
   Transcription factors and other nuclear proteins       
      Orphan nuclear receptor subfamily 0, group B, mem 1  Nr0b1; Dax NM_007430  0.0784   200   1 717  
      Retinoic acid receptor, gamma  Rarg, RARγ   M32071   0.123   160   1 240  
      Fanconi anemia, compl group D2  2410150O07Ri  AK019136   0.215   467   2 099  
      SMC2 structural maintenance of chromosomes 2-like 1  Smc2l1; CAP  AK017747   0.27   411   1 500  
      Homeo box B3  Hox-2.7  X66177   0.278   586   2 156  
      Zinc finger protein 297; Bing 1  Zfp297, Bing1 NM_020625  0.284   1 000   3 516  
      CBFA2T1, ETO, MTG8  Cbfa2t1h, Eto NM_009822  0.319   126   381  
      Zinc finger protein 1, Y-linked  Zfy1 NM_009570  0.329   180   451  
      Retinoic acid receptor, alpha  Rara, RARα   X56570   0.33   434   1 059  
      Zinc finger protein 162  Zfp162 NM_011750  0.335   159   446  
   Zinc finger and BTB domain containing 7  Zbtb7; Pokemon  AK018596   0.349   1 662   4 817  
      Kruppel-like factor 3  Klf3 NM_008453  0.38   389   910  
      Btebp1; Kruppel-like factor 9  Bteb1; Klf9 NM_010638  0.474   250   540  
      LIM domain only 2  Lmo2* NM_008505  0.483   4 807   9 776  
      GLI-Kruppel family member GLI3  Gli3 NM_008130  0.51   362   690  
      Hemogen  Hemgn  AF269248   0.539   7 947   15 065  
      TBP-associated factor 140  TAF140  AJ292189   0.539   818.5   1 359  
   Others       
      RIKEN cDNA 1190001M18 - EST  1190001M18Ri  AK004435   0.0594   128   1 522  
      RIKEN cDNA 4930518C09 gene  4930518C09Rik  AK015822   0.0762   119   836  
      Keratin complex 1, acidic, gene 15  Krt1-15 NM_008469  0.0457   149   1 858  
      Reelin  Reln  U72343   0.0458   100   3 690  
      Sparc/osteonectin, cwcv and kazal-like domains proteoglycan 1  Spock1 NM_009262  0.0503   56   632  
      Chaperonin subunit 6b (zeta)  Cct6b NM_009839  0.0578   66   505  
      IL-3; interleukin-3  IL3  S59969   0.081   268   3 479  
      RIKEN cDNA 1700011M02 gene  1700011M02Ri  AK005877   0.0831   300   2 917  
      Male wolffian duct clone: 6720484C15  6720484C15Rik  AK020173   0.0845   419   4 694  
      RIKEN cDNA 4933401L05 gene  4933401L05Rik  AK016606   0.0918   125   1 587  
      RIKEN cDNA 4933421O10 gene  4933421O10Ri  AK016866   0.0934   224   2 456  
      RIKEN cDNA 3110006O06 gene  3110006O06Ri  AK014014   0.0969   207   759  
      Tripartite motif-containing 59  Trim59 NM_025863  0.358   289   795  
      Synuclein, alpha  Snca* NM_009221  0.395   9 863   24 559  
   Nonheme enzymes       
      Fructosamine 3 kinase  FN3K  AJ404616   0.0746   346   4 573  
      ATPase, AAA domain containing 3A  Atad3a  AF343079   0.085   347   4 253  
      Mitochondrial gst 3  Mgst3* NM_025569  0.12   1 279   10 724  
      Pyruvate kinase  Pklr NM_013631  0.267   308.9   1 128  
      Protein tyrosine phosphatase 4a3  Ptp4a3, Acp5* NM_008975  0.268   3 153   11 465  
      Diacylglycerol O-acyltransferase 1  Dgat1 NM_010046  0.388   1 339   3 414  
      Pyruvate carboxylase  Pcx NM_008797  0.436   1 086   2 471  
      Ubiquitin-conjugating enzyme E2C  Ube2c  AK003722   0.461   12 446   26 672  
      Cathepsin B  Ctsb NM_007798  0.536   752.1   1 419  
   Globin and heme synthesis       
      Alpha hemoglobin-stabilizing protein  AHSP, EDRF*  AF060220   0.0426   3 666   78 235  
      β-Globin   β-major*  AF071431   0.199   13 941   72 270  
      Benzodiazepine receptor, peripheral  Bzrp* NM_009775  0.487   3 691   7 488  
      Interferon-stimulated protein  Isg20 NM_020583  0.501   1 432   2 890  
      Biliverdin reductase B  Blvrb  BC006617   0.524   15 936   29 989  
      Protoporphyrinogen oxidase  Ppox NM_008911  0.555   1 644   2 999  
      Hydroxymethylbilane synthase  Hmbs, PBGD  BC003861   0.693   30 672   42 426  
      Aminolevulinic acid synthase 2, erythroid  ALAS-E  M63244   0.711   38 138   53 271  
      Similar to Cpo protein  Cpox† NM_007757  0.752   684   
      Uroporphyrinogen decarboxylase  Urod† NM_009478  0.768   22 428   28 536  
      Ferrochelatase  Fech† NM_007998  1.195   20 752   17 629  
      Aminolevulinic acid synthase 1  ALAS-H†  M63245   1.394   846.2   625  
      Uroporphyrinogen III synthase  Uros† NM_009479  1.392   17 625   12 695  
Upregulated genes      
   Carbonic anhydrase 1  Car1 NM_009799  12.39   24 734   2 155  
   BCL2/adenovirus E1B 19-kDa interacting protein 1, NIP3  Bnip3 NM_009760  5.834   9 525   1 678  
   Neoplastic progression 3  Npn3; Srx; TX01  Z31362   4.732   3 036   686  
   RIKEN cDNA 9630039A02 gene  Cntnap2 NM_025771  4.651   1 571   388  
   Tnf receptor-associated factor 5  Traf5 NM_011633  4.464   778   367  
   Trafficking protein particle complex 2  Trappc2 NM_025432  4.039   880   344  
   RIKEN cDNA 3110040M04 gene  3110040M04Ri  AK014162   3.973   2 038   577  
   Glutathione transferase zeta 1  Tmed8; Gm1184  AK018286   3.909   2 717   690  
   Ubiquitin-conjugating enzyme E2E 1, UBC4/5 homolog  Ube2e1 NM_009455  3.842   4 706   2 774  
   Formin homology 2 domain containing 3  Fhod3  AK020839   3.558   1 508   498  
   RIKEN cDNA 1500010M24 gene  1500010M24Ri  AK005193   3.532   1 505   468.2  
   Interferon, alpha-inducible protein  G1p2 NM_015783  3.444   2 849   968.3  
   SH3 domain and nuclear localization signals, 1  Samsn1; Hacs1  AF222928   3.44   2 597   757  
   Phosphoglycerate kinase 1  Pgk1 NM_008828  3.367   14 878   5 269  
   ST3 beta-galactoside alpha-2,3-sialyltransferase 6  St3gal6 NM_018784  3.365   4 880   1 578  
   G kinase anchoring protein 1  Gkap1 NM_019832  3.29   803   460  
   Tuftelin 1  Tuft1 NM_011656  3.145   3 052   966  
   Kruppel-like factor 6  Klf6  AF072403   2.843   736   302  
   Retinoblastoma-like 2  Rbl2 NM_011250  2.793   812   346  
   Musashi homolog 2 (Drosophila)  msi2  AB056103   2.775   1 205   449  
   Annexin A6  Anxa6 NM_013472  2.622   575.2   317.8  
   Annexin A5  Anxa5 NM_009673  2.62   6 065   2 436  
   Phosphoglycerate mutase 1
 		Pgam1
 		 AF283667
 		 2.46
 		 23 283
 		 9 548
 

Gene names are in full description and common abbreviations with a GenBank accession number. The ratio is the normalized mean of the relative expression in EKLF–/– versus EKLF+/+ fetal liver RNA (n = 6). The mean absolute intensities of each gene are given.

*

Genes verified by real-time RT-PCR

†

Genes that do not have expression fold differences that are enough for listing as possible EKLF targets but are included for comparison and discussion

View Large
This Feature Is Available To Subscribers Only

or Create an Account

Close Modal
Close Modal