diff --git a/spacy/cli/init_model.py b/spacy/cli/init_model.py
index 3de17e70f..4aaf7cd5e 100644
--- a/spacy/cli/init_model.py
+++ b/spacy/cli/init_model.py
@@ -69,7 +69,8 @@ def init_model(lang, output_dir, freqs_loc=None, clusters_loc=None, jsonl_loc=No
     vectors_loc = ensure_path(vectors_loc)
     if vectors_loc and vectors_loc.parts[-1].endswith('.npz'):
         vectors_data = numpy.load(vectors_loc.open('rb'))
-        vector_keys = [lex['orth'] for lex in lex_attrs if 'id' in lex]
+        vector_keys = [lex['orth'] for lex in lex_attrs
+                       if 'rank' in lex and lex['rank'] < vectors_data.shape[0]]
     else:
         vectors_data, vector_keys = read_vectors(vectors_loc) if vectors_loc else (None, None)
     nlp = create_model(lang, lex_attrs, vectors_data, vector_keys, prune_vectors)