Starting with gnomAD v4.1.1, we no longer display constraint metrics for genes that have zero expected variants for at least one class of variation (synonymous, missense, or loss-of-function) as our models are likely not well calibrated for these genes. However, constraint metrics for all genes are available in our downloadable constraint files.
For example, the gene GJA3 is present in the constraint metrics TSV:
gene gene_id transcript canonical mane_select transcript_version transcript_type transcript_level chromosome start_position end_position cds_length num_coding_exons gene_quality_metrics.exome_prop_bp_AN90gene_quality_metrics.exome_mean_AS_MQ gene_quality_metrics.exome_prop_segdup gene_quality_metrics.exome_prop_LCR gene_flags constraint_flags syn.mu syn.possible syn.obs syn.exp syn.oe syn.z_raw syn.z_score syn.oe_ci.lowersyn.oe_ci.upper syn.gen_anc_obs.global syn.gen_anc_obs.afr syn.gen_anc_obs.amr syn.gen_anc_obs.eas syn.gen_anc_obs.nfe syn.gen_anc_obs.sas syn.gen_anc_exp.global syn.gen_anc_exp.afr syn.gen_anc_exp.amr syn.gen_anc_exp.eas syn.gen_anc_exp.nfe syn.gen_anc_exp.sas mis.mu mis.possible mis.obs mis.exp mis.oe mis.z_raw mis.z_score mis.oe_ci.lower mis.oe_ci.upper mis.gen_anc_obs.global mis.gen_anc_obs.afr mis.gen_anc_obs.amr mis.gen_anc_obs.eas mis.gen_anc_obs.nfe mis.gen_anc_obs.sas mis.gen_anc_exp.global mis.gen_anc_exp.afr mis.gen_anc_exp.amr mis.gen_anc_exp.eas mis.gen_anc_exp.nfe mis.gen_anc_exp.sas lof_hc_lc.mu lof_hc_lc.possible lof_hc_lc.obs lof_hc_lc.exp lof_hc_lc.oe lof_hc_lc.z_raw lof_hc_lc.z_score lof_hc_lc.oe_ci.lower lof_hc_lc.oe_ci.upper lof_hc_lc.gen_anc_obs.global lof_hc_lc.gen_anc_obs.afr lof_hc_lc.gen_anc_obs.amr lof_hc_lc.gen_anc_obs.eas lof_hc_lc.gen_anc_obs.nfe lof_hc_lc.gen_anc_obs.sas lof_hc_lc.gen_anc_exp.global lof_hc_lc.gen_anc_exp.afr lof_hc_lc.gen_anc_exp.amr lof_hc_lc.gen_anc_exp.eas lof_hc_lc.gen_anc_exp.nfe lof_hc_lc.gen_anc_exp.sas lof_hc_lc.pLI lof_hc_lc.pNull lof_hc_lc.pRec lof.mu lof.possible lof.obs lof.exp lof.oe lof.z_raw lof.z_score lof.oe_ci.lower lof.oe_ci.upper lof.oe_ci.upper_rank lof.oe_ci.upper_bin_percentile lof.oe_ci.upper_bin_decile lof.oe_ci.upper_bin_sextile lof.gen_anc_obs.global lof.gen_anc_obs.afr lof.gen_anc_obs.amr lof.gen_anc_obs.eas lof.gen_anc_obs.nfe lof.gen_anc_obs.sas lof.gen_anc_exp.global lof.gen_anc_exp.afr lof.gen_anc_exp.amr lof.gen_anc_exp.eas lof.gen_anc_exp.nfe lof.gen_anc_exp.sas lof.pLI lof.pNull lof.pRec
GJA3 ENSG00000121743 ENST00000241125 true true ENST00000241125.4 protein_coding 2 chr13 20138255 20161052 1305 1 1.0000e+00 5.9995e+01 0.0000e+00 0.0000e+00 [] ["no_exp_lof"] 1.1119e-05 958 297 2.9256e+02 1.0152e+00 -2.5973e-01 -1.5497e-01 9.2353e-01 1.1176e+00 [0,0,0,6,10,11,16,29,36,41,44,44,47,55,59,67,74,106,154,255,264] [0,0,1,7,11,12,15,25,30,36] [0,0,1,3,3,8,15,25,31,32,39,39,40] [0,0,0,2,5,6,11,23,30,32,37] [0,0,0,1,6,7,13,23,28,34,39,39,41,42,45,56,61,92,136,204,214] [0,0,0,4,10,12,15,22,25,28,34,34,36,40,44,56] [0.0,0.0,1.9758899499019127,6.439129798039037,11.816066183127015,15.672206365931729,23.179854055489614,36.78522698564073,43.47383764833371,50.34941086574893,55.64482846139212,55.87596053796935,59.49197531140357,65.7805438604783,70.26150461072159,84.5898393869103,91.17064883587607,127.35850038074153,173.0417004631954,252.6749053596242,263.4230553053693] [0.0,0.0,2.361191836158085,6.610713692993698,11.938534287470095,15.631075258391958,23.020221990602572,35.780385434246924,41.98707190969526,48.39205406742485] [0.0,0.0,2.2341621417681274,6.233203128961899,11.258220286117538,14.603291380852081,21.09230584327959,31.846563856072923,36.929259485352354,42.084462210377,45.920201076910935,46.092633393456104,48.727470092489796] [0.0,0.0,1.996450315309638,5.228421235907664,9.406461960056898,12.236312423372135,17.93372939791319,27.968840374090128,32.932451148084795,38.17919618530159,42.21188996160309] [0.0,0.0,1.6044707507637024,4.373801703208497,8.26164184524027,11.143542303712202,17.057038298040784,27.912340300138315,33.29122364727637,38.894660955753274,43.186967566583355,43.386448984130055,46.328755210905705,51.44892330746867,55.140541111668796,67.07855628634397,72.5139070965689,102.02965050009075,139.06505396909003,202.3404728029647,210.9768941710781] [0.0,0.0,2.19287112092389,6.042312743270888,11.0277495790507,14.396833348932851,21.305952293726136,33.17149321591855,39.00169560257442,45.16494860928718,49.85212210199583,50.07784849414171,53.373515818331526,58.928381180532334,62.99367590959447,76.01768665564163] 1.9061e-05 2817 571 6.2032e+02 9.2050e-01 1.9802e+00 8.4452e-01 8.5962e-01 9.8643e-01 [0,0,2,5,7,11,14,30,41,47,58,58,67,77,83,101,113,190,282,468,496] [0,0,0,7,9,20,26,47,54,62] [0,0,0,3,6,10,15,30,35,40,45,45,52] [0,0,0,5,8,14,20,31,43,54,64] [0,0,1,3,5,7,11,28,32,47,50,50,53,59,62,78,86,146,215,351,373] [0,0,0,7,13,15,26,38,44,53,57,58,60,67,72,95] [0.0,0.0,3.5183868467425263,11.289967856708849,20.72823484388578,27.57565761204593,40.98102449427436,65.66691639845892,77.99285891015676,90.81156580478564,100.79430827990379,101.23005880500237,108.1158938437769,120.14616053385947,128.78831307649116,156.86385694237381,169.98171957669715,244.534297485504,343.40092275576484,525.2774944598704,550.671222435374] [0.0,0.0,4.107134713771138,11.578974641710701,20.961187632954733,27.538002799388487,40.79167339737744,63.98823267353769,75.44976050895875,87.41035689618809] [0.0,0.0,3.9051272256081595,10.922660958763391,19.787073665983907,25.73619252370945,37.279382564410966,56.65071808446767,65.92306093095486,75.38198905227604,82.523098171392,82.85323947554677,87.75524943026589] [0.0,0.0,3.487179411502575,9.145393672478598,16.487277825262375,21.511723537553493,31.63359108905654,49.67391385569887,58.74042200861366,68.38781743795371,75.85586593888495] [0.0,0.0,2.804097766705156,7.624990325271556,14.44102685578625,19.53014628565427,30.010525413199854,49.46857298467663,59.24216862729098,69.52687551023847,77.46539937638742,77.83903391553356,83.31670788301685,92.8783846032862,99.83192091845248,122.67990476983559,133.25729428365074,192.23551867833527,269.7752245727865,409.5468834144472,429.24701404681224] [0.0,0.0,3.826734037017941,10.568537015398022,19.375424036443643,25.361261070777196,37.688410371644814,59.16002823287648,69.92821780376183,81.36629905882155,90.14790861264842,90.57480585078109,96.77235388167783,107.35262910386624,115.1530596114292,140.5205774506942] 5.3553e-07 131 20 2.7652e+01 7.2327e-01 1.4552e+00 1.2140e+00 5.0890e-01 1.0510e+00 [0,0,0,0,0,0,0,0,0,0,0,0,2,2,2,2,2,5,7,13,15] [0,0,0,0,0,0,0,0,0,0] [0,0,0,1,1,1,1,1,1,2,2,2,2] [0,0,0,0,0,0,0,1,1,1,1] [0,0,0,0,0,0,0,0,0,0,1,1,1,1,1,1,2,5,9,13,14] [0,0,0,0,0,0,0,0,0,0,0,0,0,1,1,3] [0.0,0.0,0.11246127293363643,0.3470140176625849,0.6385153269076647,0.8562782131793654,1.288450733503287,2.121076021426807,2.554052394383164,3.0157439707437663,3.3874120907945278,3.403593787962307,3.66369831201532,4.1224619587920905,4.459087503441511,5.5868009614120595,6.130522704641907,9.383436104147608,14.001182837762952,22.905569024471188,24.170575443836963] [0.0,0.0,0.12320717720666341,0.3559874285012772,0.647328439987282,0.8576931817620491,1.2904365127270112,2.077860278005144,2.4834717589433346,2.915255921203858] [0.0,0.0,0.11932922183257953,0.3367181223979546,0.6127680063778315,0.8024512405242019,1.1726402778261944,1.813551314147041,2.1313331761633947,2.4628560629688327,2.7172654787900736,2.7294605078856065,2.905235439265494] [0.0,0.0,0.10572668389145634,0.2760541442580047,0.5004429558823751,0.6587211026623653,0.9799191319768323,1.569428159986623,1.8779157120234438,2.212670672280967,2.4776348909967663] [0.0,0.0,0.0845190415846646,0.23010517660055904,0.43878255865217713,0.59708116886692,0.9272047131286482,1.5628636579335338,1.8916416694866478,2.2496533933041087,2.530528880471018,2.5437370629004676,2.7400235716943024,3.0874012292806863,3.343545784827301,4.21548519788601,4.633891268718942,7.0747637611144185,10.539812069465748,17.19484653789579,18.159037819882208] [0.0,0.0,0.11684020266024858,0.32216016749106646,0.5947621394831762,0.7828735683606651,1.1801972853692477,1.9001126531205224,2.276239024170576,2.683118824522179,3.002703377041907,3.0180905813213252,3.2469539434303982,3.643767933886735,3.9396643276925776,4.940274777583184] NA NA NA 4.6854e-09 3NA NA NA NA NA NA NA NA NA NA NA [null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null] [null,null,null,null,null,null,null,null,null,null] [null,null,null,null,null,null,null,null,null,null,null,null,null] [null,null,null,null,null,null,null,null,null,null,null] [null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null] [null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null] [null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null] [null,null,null,null,null,null,null,null,null,null] [null,null,null,null,null,null,null,null,null,null,null,null,null] [null,null,null,null,null,null,null,null,null,null,null] [null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null] [null,null,null,null,null,null,null,null,null,null,null,null,null,null,null,null] NA NA NA
and is flagged with the following constraint flag: no_exp_lof.